| Next changeset 1:1feea247d08a (2024-12-03) |
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Commit message:
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/phyloseq commit 5ec9f9e81bb9a42dec5c331dd23215ca0b027b2b |
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added:
macros.xml phyloseq_from_biom.R phyloseq_from_biom.xml phyloseq_from_dada2.R phyloseq_plot_ordination.R phyloseq_plot_richness.R test-data/biom-refseq.fasta test-data/biom-tree.phy test-data/output.phyloseq test-data/rich_dense_otu_table.biom test-data/rich_dense_otu_table.biom2 test-data/sample_data.tabular test-data/sequence_table.dada2_sequencetable test-data/taxonomy_table.tabular |
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| diff -r 000000000000 -r c0101c72b8af macros.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/macros.xml Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,32 @@ +<macros> + <token name="@TOOL_VERSION@">1.46.0</token> + <token name="@VERSION_SUFFIX@">0</token> + <token name="@PROFILE@">21.01</token> + <xml name="bio_tools"> + <xrefs> + <xref type="bio.tools">phyloseq</xref> + </xrefs> + </xml> + <xml name="requirements"> + <requirements> + <requirement type="package" version="@TOOL_VERSION@">bioconductor-phyloseq</requirement> + <requirement type="package" version="1.7.3">r-optparse</requirement> + <requirement type="package" version="2.0.0">r-tidyverse</requirement> + </requirements> + </xml> + <xml name="phyloseq_input"> + <param name="input" type="data" format="phyloseq" label="File containing a phyloseq object"/> + </xml> + <xml name="outputs"> + <outputs> + <data name="output" format="pdf"/> + </outputs> + </xml> + <xml name="citations"> + <citations> + <citation type="doi">10.18129/B9.bioc.phyloseq</citation> + <citation type="doi">10.1371/journal.pone.0061217</citation> + </citations> + </xml> +</macros> + |
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| diff -r 000000000000 -r c0101c72b8af phyloseq_from_biom.R --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/phyloseq_from_biom.R Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,30 @@ +#!/usr/bin/env Rscript + +suppressPackageStartupMessages(library("optparse")) +suppressPackageStartupMessages(library("phyloseq")) +suppressPackageStartupMessages(library("tidyverse")) + +option_list <- list( + make_option(c("--BIOMfilename"), action = "store", dest = "biom", help = "Input BIOM file"), + make_option(c("--treefilename"), action = "store", dest = "tree", default = NULL, help = "Input Tree newick/nexus file"), + make_option(c("--parseFunction"), action = "store", dest = "parsefoo", default = "parse_taxonomy_default", help = "Parse function parse_taxonomy_default/read_tree_greengenes"), + make_option(c("--refseqfilename"), action = "store", dest = "sequences", default = NULL, help = "Input Sequence fasta file"), + make_option(c("--output"), action = "store", dest = "output", help = "RDS output") +) + +parser <- OptionParser(usage = "%prog [options] file", option_list = option_list) +args <- parse_args(parser, positional_arguments = TRUE) +opt <- args$options + +parsefoo <- get(opt$parsefoo) +phyloseq_obj <- import_biom( + BIOMfilename = opt$biom, + treefilename = opt$tree, + refseqfilename = opt$sequences, + parseFunction = parsefoo +) + +print(phyloseq_obj) + +# save R object to file +saveRDS(phyloseq_obj, file = opt$output, compress = TRUE) |
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| diff -r 000000000000 -r c0101c72b8af phyloseq_from_biom.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/phyloseq_from_biom.xml Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,92 @@ +<tool id="phyloseq_from_biom" name="Create phyloseq object" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> + <description>from a BIOM file</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="bio_tools"/> + <expand macro="requirements"/> + <command detect_errors="exit_code"><![CDATA[ +Rscript '${__tool_directory__}/phyloseq_from_biom.R' + --BIOMfilename '$BIOMfilename' + #if $treefilename + --treefilename '$treefilename' + --parseFunction $parseFunction + #end if + #if $refseqfilename + --refseqfilename '$refseqfilename' + #end if + --output '$output' + ]]></command> + <inputs> + <param argument="BIOMfilename" type="data" format="biom1,biom2" label="BIOM file" help=""/> + <param argument="treefilename" type="data" format="nex,newick" optional="true" label="Phylogeny" help=""/> + <param name="parseFunction" type="select" label="Tree label parser" help=""> + <option value="parse_taxonomy_default">Default</option> + <option value="parse_taxonomy_greengenes">Greengenes</option> + <option value="parse_taxonomy_qiime">Qiime</option> + </param> + <param argument="refseqfilename" type="data" format="fasta" optional="true" label="Sequences" help=""/> + </inputs> + <outputs> + <data name="output" format="phyloseq"/> + </outputs> + <tests> + <test> + <param name="BIOMfilename" value="rich_dense_otu_table.biom" ftype="biom1"/> + <output name="output"> + <assert_contents> + <has_size value="880" delta="100"/> + </assert_contents> + </output> + <assert_stdout> + <has_line line="phyloseq-class experiment-level object"/> + <has_line line="otu_table() OTU Table: [ 5 taxa and 6 samples ]"/> + <has_line line="sample_data() Sample Data: [ 6 samples by 4 sample variables ]"/> + <has_line line="tax_table() Taxonomy Table: [ 5 taxa by 7 taxonomic ranks ]"/> + <has_n_lines n="4"/> + </assert_stdout> + </test> + <test> + <param name="BIOMfilename" value="rich_dense_otu_table.biom2" ftype="biom2"/> + <output name="output"> + <assert_contents> + <has_size value="880" delta="100"/> + </assert_contents> + </output> + <assert_stdout> + <has_line line="phyloseq-class experiment-level object"/> + <has_line line="otu_table() OTU Table: [ 5 taxa and 6 samples ]"/> + <has_line line="sample_data() Sample Data: [ 6 samples by 4 sample variables ]"/> + <has_line line="tax_table() Taxonomy Table: [ 5 taxa by 7 taxonomic ranks ]"/> + <has_n_lines n="4"/> + </assert_stdout> + </test> + <test> + <param name="BIOMfilename" value="rich_dense_otu_table.biom" ftype="biom1"/> + <param name="treefilename" value="biom-tree.phy"/> + <param name="parseFunction" value="parse_taxonomy_greengenes"/> + <param name="refseqfilename" value="biom-refseq.fasta"/> + <output name="output"> + <assert_contents> + <has_size value="1880" delta="200"/> + </assert_contents> + </output> + <assert_stdout> + <has_line line="phyloseq-class experiment-level object"/> + <has_line line="otu_table() OTU Table: [ 5 taxa and 6 samples ]"/> + <has_line line="sample_data() Sample Data: [ 6 samples by 4 sample variables ]"/> + <has_line line="tax_table() Taxonomy Table: [ 5 taxa by 7 taxonomic ranks ]"/> + <has_line line="phy_tree() Phylogenetic Tree: [ 5 tips and 4 internal nodes ]"/> + <has_line line="refseq() DNAStringSet: [ 5 reference sequences ]"/> + <has_n_lines n="6"/> + </assert_stdout> + </test> + </tests> + <help> +**What it does** + +Read a BIOM file (and optionally sequences and a phylogeny) and store them in a phyloseq object. + </help> + <expand macro="citations"/> +</tool> + |
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| diff -r 000000000000 -r c0101c72b8af phyloseq_from_dada2.R --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/phyloseq_from_dada2.R Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,55 @@ +#!/usr/bin/env Rscript + +suppressPackageStartupMessages(library("optparse")) +suppressPackageStartupMessages(library("phyloseq")) +suppressPackageStartupMessages(library("tidyverse")) + +option_list <- list( + make_option(c("--sequence_table"), action = "store", dest = "sequence_table", help = "Input sequence table"), + make_option(c("--taxonomy_table"), action = "store", dest = "taxonomy_table", help = "Input taxonomy table"), + make_option(c("--sample_table"), action = "store", default = NULL, dest = "sample_table", help = "Input sample table"), + make_option(c("--output"), action = "store", dest = "output", help = "RDS output") +) + +parser <- OptionParser(usage = "%prog [options] file", option_list = option_list) +args <- parse_args(parser, positional_arguments = TRUE) +opt <- args$options +# The input sequence_table is an integer matrix +# stored as tabular (rows = samples, columns = ASVs). +seq_table_numeric_matrix <- data.matrix(read.table(opt$sequence_table, header = T, sep = "\t", row.names = 1, check.names = FALSE)) +# The input taxonomy_table is a table containing +# the assigned taxonomies exceeding the minBoot +# level of bootstrapping confidence. Rows correspond +# to sequences, columns to taxonomic levels. NA +# indicates that the sequence was not consistently +# classified at that level at the minBoot threshold. +tax_table_matrix <- as.matrix(read.table(opt$taxonomy_table, header = T, sep = "\t", row.names = 1, check.names = FALSE)) +# Construct a tax_table object. The rownames of +# tax_tab must match the OTU names (taxa_names) +# of the otu_table defined below. +tax_tab <- tax_table(tax_table_matrix) + +# Construct an otu_table object. +otu_tab <- otu_table(seq_table_numeric_matrix, taxa_are_rows = TRUE) + +# Construct a phyloseq object. +phyloseq_obj <- phyloseq(otu_tab, tax_tab) +if (!is.null(opt$sample_table)) { + sample_tab <- sample_data( + read.table(opt$sample_table, header = T, sep = "\t", row.names = 1, check.names = FALSE) + ) + phyloseq_obj <- merge_phyloseq(phyloseq_obj, sample_tab) +} + +# use short names for our ASVs and save the ASV sequences +# refseq slot of the phyloseq object as described in +# https://benjjneb.github.io/dada2/tutorial.html +dna <- Biostrings::DNAStringSet(taxa_names(phyloseq_obj)) +names(dna) <- taxa_names(phyloseq_obj) +phyloseq_obj <- merge_phyloseq(phyloseq_obj, dna) +taxa_names(phyloseq_obj) <- paste0("ASV", seq(ntaxa(phyloseq_obj))) + +print(phyloseq_obj) + +# save R object to file +saveRDS(phyloseq_obj, file = opt$output, compress = TRUE) |
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| diff -r 000000000000 -r c0101c72b8af phyloseq_plot_ordination.R --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/phyloseq_plot_ordination.R Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,27 @@ +#!/usr/bin/env Rscript + +suppressPackageStartupMessages(library("optparse")) +suppressPackageStartupMessages(library("phyloseq")) + +option_list <- list( + make_option(c("--input"), action = "store", dest = "input", help = "Input file containing a phyloseq object"), + make_option(c("--method"), action = "store", dest = "method", help = "Ordination method"), + make_option(c("--distance"), action = "store", dest = "distance", help = "Distance method"), + make_option(c("--type"), action = "store", dest = "type", help = "Plot type"), + make_option(c("--output"), action = "store", dest = "output", help = "Output") +) + +parser <- OptionParser(usage = "%prog [options] file", option_list = option_list) +args <- parse_args(parser, positional_arguments = TRUE) +opt <- args$options +# Construct a phyloseq object. +phyloseq_obj <- readRDS(opt$input) +# Transform data to proportions as appropriate for +# Bray-Curtis distances. +proportions_obj <- transform_sample_counts(phyloseq_obj, function(otu) otu / sum(otu)) +ordination_obj <- ordinate(proportions_obj, method = opt$method, distance = opt$distance) +# Start PDF device driver and generate the plot. +dev.new() +pdf(file = opt$output) +plot_ordination(proportions_obj, ordination_obj, type = opt$type) +dev.off() |
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| diff -r 000000000000 -r c0101c72b8af phyloseq_plot_richness.R --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/phyloseq_plot_richness.R Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,19 @@ +#!/usr/bin/env Rscript + +suppressPackageStartupMessages(library("optparse")) +suppressPackageStartupMessages(library("phyloseq")) + +option_list <- list( + make_option(c("--input"), action = "store", dest = "input", help = "Input RDS file containing a phyloseq object"), + make_option(c("--output"), action = "store", dest = "output", help = "Output PDF") +) + +parser <- OptionParser(usage = "%prog [options] file", option_list = option_list) +args <- parse_args(parser, positional_arguments = TRUE) +opt <- args$options +phyloseq_obj <- readRDS(opt$input) +# Start PDF device driver and generate the plot. +dev.new() +pdf(file = opt$output) +plot_richness(phyloseq_obj, x = "samples", color = "samples") +dev.off() |
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| diff -r 000000000000 -r c0101c72b8af test-data/biom-refseq.fasta --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/biom-refseq.fasta Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,29 @@ +>GG_OTU_1 +AACGTAGGTCACAAGCGTTGTCCGGAATTACTGGGTGTAAAGGGAGCGCAGGCGGGAAGACAAGTTGGAAGTGAAATCCA +TGGGCTCAACCCATGAACTGCTTTCAAAACTGTTTTTCTTGAGTAGTGCAGAGGTAGGCGGAATTCCCCGTGTAGCGGTG +AAATGCGTAGAGATGGGGAGGAACACCAGTGGCGAAGGCGGCCTGCTGGGCTTTAACTGACGCTGAGGCACGAAAGCGTG +GGTAGCAAACAGGATTAGATACCCTGGTAGTCCACGCTGTAAACGATGATTACTAGGTGTGGGGGTCTGACCCCTTCCGT +GCCGGAGTTAACAC +>GG_OTU_2 +TACGTAGGGAGCAAGCGTTATCCGGATTTATTGGGTGTAAAGGGTGCGTAGACGGGAGAACAAGTTAGTTGTGAAAGCCC +TCGGCTTAACTGAGGAACTGCAACTAAAACTATTTTTCTTGAGTGCAGGAGAGGAAAGCGGAATTCCTAGTGTAGCGGTG +AAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCTTTCTGGACTGTAACTGACGTTGAGGCACGAAAGTGTG +GGGAGCAAACAGGATTAGATACCCTGGTAGTCCACACCGTAAACGATGGATACTAGGTGTAGGAGATGATTTCATCATCT +GTGCCGAAAGCAAACGCAATAAGTATCCCACCTGGGGAGTACGGCCGCAAGGTTGAAACTCAAAGGATTGACGGGGCCCG +CACAAGCAGTGGAGTATGTGGTTTAATTCGAAGCAACGCGAAGAACCTTACCAGGGCTTGACATA +>GG_OTU_3 +TACGTAGGGGGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGTAGACGGCATCACAAGTCAGAAGTGAAAAATC +CGGGGGCTCCAACCCCGGAACTGCTTTTGAAACTGTGGAGCTGGAGTGCAGGAGAGGTAAGCGGAATTCCTAGTGTAGCG +GTAGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGCTTACTGGACTGTAACTGACGTTGAGGCTCGAAAGC +GTGGGGAGC +>GG_OTU_4 +TACGTATGGTGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGCAGGCGGTGCGGCAAGTCTGATGTGAAAGCCC +GGGGCTCAACCCCGGTACTGCATTGGAAACTGTCGTACTAGAGTGTCGGAGGGGTAAGCGGAATTCCTAGTGTAGCGGTG +AAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCTTACTGGACGATAACTGACGCTGAGGCTCGAAAGCGTG +GGAGCAAACAGGATTAGATACCCTGGTAGTCCACGCCGTAAACGATGAATACTAGGTGTTGGGAAGCATTGCTTCTCGGT +GCCGTCGCAAACGCAGTAAGTATTCCACCTGGGGGATACGTTTCGACAAGAATAGAAACTACAAAAGGAATTAGGACGGG +GACCCGCACAAGCGGTGAGCATGTGGTTAATCGAAGCAACGCGAAGAACCTTA +>GG_OTU_5 +AACGTAGGGTGCAAGCGTTGTCCGGAATTACTGGGTGTAAAGGGAGCGCAGGCGGGAGACAAGTTGGAAGTGAAACCATG +GGCTCAACCCATGAATTGCTTTCAAAACTGTTTTTCTTGAGTTAGTGCAGAGGTAGATGGAATTCCCGGTGTAGCGGTGG +AATGCGTAGATATCGGGA |
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| diff -r 000000000000 -r c0101c72b8af test-data/biom-tree.phy --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/biom-tree.phy Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,1 @@ +(((GG_OTU_1:0.00892,GG_OTU_2:0.01408)1.000.2:0.12196,GG_OTU_3:0.16022)0.995.2:0.01869,(GG_OTU_4:0.08976,GG_OTU_5:0.0665)0.766:0.09714)0.764.3; |
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| diff -r 000000000000 -r c0101c72b8af test-data/output.phyloseq |
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| Binary file test-data/output.phyloseq has changed |
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| diff -r 000000000000 -r c0101c72b8af test-data/rich_dense_otu_table.biom --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/rich_dense_otu_table.biom Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,56 @@ +{ + "id":null, + "format": "Biological Observation Matrix 1.0.0-dev", + "format_url": "http://biom-format.org", + "type": "OTU table", + "generated_by": "QIIME revision XYZ", + "date": "2011-12-19T19:00:00", + "rows":[ + {"id":"GG_OTU_1", "metadata":{"taxonomy":["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Enterobacteriales", "f__Enterobacteriaceae", "g__Escherichia", "s__"]}}, + {"id":"GG_OTU_2", "metadata":{"taxonomy":["k__Bacteria", "p__Cyanobacteria", "c__Nostocophycideae", "o__Nostocales", "f__Nostocaceae", "g__Dolichospermum", "s__"]}}, + {"id":"GG_OTU_3", "metadata":{"taxonomy":["k__Archaea", "p__Euryarchaeota", "c__Methanomicrobia", "o__Methanosarcinales", "f__Methanosarcinaceae", "g__Methanosarcina", "s__"]}}, + {"id":"GG_OTU_4", "metadata":{"taxonomy":["k__Bacteria", "p__Firmicutes", "c__Clostridia", "o__Halanaerobiales", "f__Halanaerobiaceae", "g__Halanaerobium", "s__Halanaerobiumsaccharolyticum"]}}, + {"id":"GG_OTU_5", "metadata":{"taxonomy":["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Enterobacteriales", "f__Enterobacteriaceae", "g__Escherichia", "s__"]}} + ], + "columns":[ + {"id":"Sample1", "metadata":{ + "BarcodeSequence":"CGCTTATCGAGA", + "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT", + "BODY_SITE":"gut", + "Description":"human gut"}}, + {"id":"Sample2", "metadata":{ + "BarcodeSequence":"CATACCAGTAGC", + "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT", + "BODY_SITE":"gut", + "Description":"human gut"}}, + {"id":"Sample3", "metadata":{ + "BarcodeSequence":"CTCTCTACCTGT", + "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT", + "BODY_SITE":"gut", + "Description":"human gut"}}, + {"id":"Sample4", "metadata":{ + "BarcodeSequence":"CTCTCGGCCTGT", + "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT", + "BODY_SITE":"skin", + "Description":"human skin"}}, + {"id":"Sample5", "metadata":{ + "BarcodeSequence":"CTCTCTACCAAT", + "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT", + "BODY_SITE":"skin", + "Description":"human skin"}}, + {"id":"Sample6", "metadata":{ + "BarcodeSequence":"CTAACTACCAAT", + "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT", + "BODY_SITE":"skin", + "Description":"human skin"}} + ], + "matrix_type": "dense", + "matrix_element_type": "int", + "shape": [5,6], + "data": [[0,0,1,0,0,0], + [5,1,0,2,3,1], + [0,0,1,4,2,0], + [2,1,1,0,0,1], + [0,1,1,0,0,0]] + } + |
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| diff -r 000000000000 -r c0101c72b8af test-data/rich_dense_otu_table.biom2 |
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| Binary file test-data/rich_dense_otu_table.biom2 has changed |
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| diff -r 000000000000 -r c0101c72b8af test-data/sample_data.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sample_data.tabular Sat Mar 16 07:56:17 2024 +0000 |
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| @@ -0,0 +1,3 @@ + Property Number +SRR14190457 Early 1 +SRR14190458 Late 2 \ No newline at end of file |
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| diff -r 000000000000 -r c0101c72b8af test-data/sequence_table.dada2_sequencetable --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/sequence_table.dada2_sequencetable Sat Mar 16 07:56:17 2024 +0000 |
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| b'@@ -0,0 +1,65 @@\n+\tSRR14190457\tSRR14190458\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGTGCAGGCGGTTCAATAAGTCTGATGTGAAAGCCTTCGGCTCAACCGGAGAATTGCATCAGAAACTGTTGAACTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGCAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGGATTAGAAACCCCCGTAGTCC\t178\t11\n+GTGTCAGCAGCCGCGGTAATACGGAGGATCCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGAGCGTAGGTGGACTGGTAAGTCAGTTGTGAAAGTTTGCGGCTCAACCGTAAAATTGCAGTTGATACTGTCAGTCTTGAGTACAGTAGAGGTGGGCGGAATTCGTGGTGTAGCGGTGAAATGCTTAGATATCACGAAGAACTCCGATTGCGAAGGCAGCTCACTGGACTGCAACTGACACTGATGCTCGAAAGTGTGGGTATCAAACAGGATTAGAAACCCCCGTAGTCC\t136\t15\n+GTGTCAGCAGCCGCGGTAATACGTAGGGTGCAAGCGTTATCCGGAATTATTGGGCGTAAAGGGCTCGTAGGCGGTTCGTCGCGTCCGGTGTGAAAGTCCATCGCTTAACGGTGGATCCGCGCCGGGTACGGGCGGGCTTGAGTGCGGTAGGGGAGACTGGAATTCCCGGTGTAACGGTGGAATGTGTAGATATCGGGAAGAACACCAATGGCGAAGGCAGGTCTCTGGGCCGTTACTGACGCTGAGGAGCGAAAGCGTGGGGAGCGAACAGGATTAGAAACCCCAGTAGTCC\t129\t16\n+GTGTCAGCAGCCGCGGTAATACGGAGGATCCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGAGCGTAGATGGATGTTTAAGTCAGTTGTGAAAGTTTGCGGCTCAACCGTAAAATTGCAGTTGATACTGGATATCTTGAGTGCAGTTGAGGCAGGCGGAATTCGTGGTGTAGCGGTGAAATGCTTAGATATCACGAAGAACTCCGATTGCGAAGGCAGCCTGCTAAGCTGCAACTGACATTGAGGCTCGAAAGTGTGGGTATCAAACAGGATTAGATACCCCCGTAGTCC\t128\t22\n+GTGTCAGCAGCCGCGGTAATACGTATGGTGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGTAGACGGTTGTGTAAGTCTGATGTGAAAGCCCGGGGCTCAACCCCGGGACTGCATTGGAAACTATGTAACTAGAGTGTCGGAGAGGTAAGCGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCTTACTGGACGATCACTGACGTTGAGGCTCGAAAGCGTGGGGAGCAAACAGGATTAGATACCCGCGTAGTCC\t110\t22\n+GTGTCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGATACCCCCGTAGTCC\t104\t22\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGCGCAGGCGGAAAGATAAGTCTGATGTGAAAGCCCCCGGCTTAACCGAGGAATTGCATCGGAAACTGTGTTTCTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGTAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGGATTAGATACCCCCGTAGTCC\t97\t24\n+GTGTCAGCAGCCGCGGTAATACGTAGGGGGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGTAGACGGCATGGCAAGCCAGATGTGAAAGCCCGGGGCTCAACCCCGGGACTGCATTTGGAACTGTCAGGCTAGAGTGTCGGAGAGGAAAGCGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCTTTCTGGACGATGACTGACGTTGAGGCTCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCCCGTAGTCC\t90\t25\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGAATTATTGGGCGTAAAGGGCTCGCAGGCGGTTCCTTAAGTCTGATGTGAAAGCCCCCGGCTCAACCGGGGAGGGTCATTGGAAACTGGGGAACTTGAGTGCAGAAGAGGAGAGTGGAATTCCACGTGTAGCGGTGAAATGCGTAGAGATGTGGAGGAACACCAGTGGCGAAGGCGACTCTCTGGTCTGTAACTGACGCTGAGGAGCGAAAGCGTGGGGAGCGAACAGGATTAGAAACCCCAGTAGTCC\t88\t26\n+GTGTCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCCCGTAGTCC\t86\t26\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGCGCAGGCGGAAAGATAAGTCTGATGTGAAAGCCCCCGGCTTAACCGAGGAATTGCATCGGAAACTGTGTTTCTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGTAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGGATTAGAAACCCCCGTAGTCC\t84\t27\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGCGCAGGCGGAAAAATAAGTCTAATGTGAAAGCCCTCGGCTTAACCGAGGAACTGCATCGGAAACTGTTTTTCTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGCAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGGATTAGAAACCCCCGTAGTCC\t83\t27\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTATCCGGATTTATTGGGCGTAAAGCGAGCGCAGGCGGTTGCTTAGGTCTGATGTGAAAGCCTTCGGCTTAACCGAAGAAGTGCATCGGAAACCGGGCGACTTGAGTGCAGAAGAGGACAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTGTCTGGTCTGCAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGGATTAGAAACCCCAGTAGTCC\t71\t28\n+GTGTCAGCAGCCGCGGTAATACGTATGGTGCAAGCGTTATCCGGATTTA'..b'CAGTGGCGAAGGCGGATAACTGGACGGCAACTGACGGTGAGGCGCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCTTGTAGTCC\t28\t71\n+GTGTCAGCAGCCGCGGTAAAACGTAGGTCACAAGCGTTGTCCGGAATTACTGGGTGTAAAGGGAGCGCAGGCGGGAAAGCAAGTTGGAAGTGAAATCCATGGGCTCAACCCATGAACTGCTTTCAAAACTGTTTTTCTTGAGTAGTGCAGAGGTAGGCGGAATTCCCGGTGTAGCGGTGAAATGCGTAGATATTGGGAGGAACACCAGTGGCGAAGGCGCCTTTCTGGACTGTGTCTGACGCTGAGATGCGAAAGCCAGGGTAGCGAACGGGATTAGATACCCCCGTAGTCC\t28\t71\n+GTGTCAGCAGCCGCGGTAATACGTAGGGGGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGTAGACGGATGGACAAGTCTGATGTGAAAGGCTGGGGCTCAACCCCGGGACTGCATTGGAAACTGCCCGTCTTGAGTGCCGGAGAGGTAAGCGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCTTACTGGACGATCACTGACGTTGAGGCTCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCGCGTAGTCC\t27\t83\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGAATTATTGGGCGTAAAGGGCTCGTAGGCGGCTCGTCGCGTCCGGTGTGAAAGTCCATCGCTTAACGGTGGATCTGCGCCGGGTACGGGCGGGCTGGAGTGCGGTAGGGGAGACTGGAATTCCCGGTGTAACGGTGGAATGTGTAGATATCGGGAAGAACACCGATGGCGAAGGCAGGTCTCTGGGCCGTCACTGACGCTGAGGAGCGAAAGCGTGGGGAGCGAACAGGATTAGAAACCCCCGTAGTCC\t27\t84\n+GTGTCAGCAGCCGCGGTAATACGTAGGGTGCGAGCGTTGTCCGGAATTACTGGGCGTAAAGGGCTCGTAGGTGGTTTGTCGCGTCGTCTGTGAAATTCTGGGGCTTAACTCCGGGCGTGCAGGCGATACGGGCATAACTTGAGTGCTGTAGGGGTAACTGGAATTCCTGGTGTAGCGGTGAAATGCGCAGATATCAGGAGGAACACCGATGGCGAAGGCAGGTTACTGGGCAGTTACTGACGCTGAGGAGCGAAAGCATGGGTAGCGAACAGGATTAGATACCCCAGTAGTCC\t26\t86\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGCGCAGGCGGAAAGATAAGTCTGATGTGAAAGCCCCCGGCTTAACCGAGGAATTGCATCGGAAACTGTGTTTCTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGTAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGGATTAGATACCCTAGTAGTCC\t26\t88\n+GTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCCCGTAGTCC\t25\t90\n+GTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCTTGTAGTCC\t24\t97\n+GTGTCAGCAGCCGCGGTAATACGAAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCGCGTAGGTGGTTCAGCAAGTTGGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCCAAAACTACTGAGCTAGAGTACGGTAGAGGGTGGTGGAATTTCCTGTGTAGCGGTGAAATGCGTAGATATGTGGAGGAACACCAGTGGCGAAGGCGACTCTCTGGTCTGTAACTGACGCTGAGGCGCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCGCGTAGTCC\t22\t104\n+GTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGATACCCCCGTAGTCC\t22\t110\n+GTGTCAGCAGCCGCGGTAATACGTAGGGGGCTAGCGTTATCCGGAATTACTGGGCGTAAAGGGTGCGTAGGTGGTTTCTTAAGTCAGAGGTGAAAGGCTACGGCTCAACCGTAGTAAGCCTTTGAAACTGAGAAACTTGAGTGCAGGAGAGGAGAGTAGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAATACCAGTTGCGAAGGCGGCTCTCTGGACTGTAACTGACACTGAGGCACGAAAGCGTGGGGAGCAAACAGGATTAGATACCCGCGTAGTCC\t22\t128\n+GTGTCAGCAGCCGCGGTGATACGTAGGGTGCGAGCGTTGTCCGGATTTATTGGGCGTAAAGGGCTCGTAGGTGGTTGATCGCGTCGGAAGTGTAATCTTGGGGCTTAACCCTGAGCGTGCTTTCGATACGGGTTGACTTGAGGAAGGTAGGGGAGAATGGAATTCCTGGTGGAGCGGTGGAATGCGCAGATATCAGGAGGAACACCAGTGGCGAAGGCGGTTCTCTGGGCCTTTCCTGACGCTGAGGAGCGAAAGCGTGGGGAGCGAACAGGCTTAGATACCCCTGTAGTCC\t16\t129\n+GTGTCAGCAGCCGCGGTAATACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGACTGTCAAGTCAGCGGTAAAATTGAGAGGCTCAACCTCTTCGAGCCGTTGAAACTGGCGGTCTTGAGTGAGCGAGAAGTACGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCGTACCGGCGCTCAACTGACGCTCATGCACGAAAGCGTGGGTATCGAACAGGATTAGATACCCCCGTAGTCC\t15\t136\n+GTGTCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTATCCGGATTCACTGGGTTTAAAGGGTGCGTAGGCGGGCGTATAAGTCAGTGGTGAAATCCTGGAGCTTAACTCCAGAACTGCCATTGATACTATATGTCTTGAATATGGTGGAGGTAAGCGGAATATGTCATGTAGCGGTGAAATGCATAGATATGACATAGAACACCTATTGCGAAGGCAGCTTACTACGCCTATATTGACGCTGAGGCACGAAAGCGTGGGGATCAAACAGGATTAGAAACCCGAGTAGTCC\t11\t178\n' |
| b |
| diff -r 000000000000 -r c0101c72b8af test-data/taxonomy_table.tabular --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/taxonomy_table.tabular Sat Mar 16 07:56:17 2024 +0000 |
| b |
| b'@@ -0,0 +1,65 @@\n+\tKingdom\tPhylum\tClass\tOrder\tFamily\tGenus\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGTGCAGGCGGTTCAATAAGTCTGATGTGAAAGCCTTCGGCTCAACCGGAGAATTGCATCAGAAACTGTTGAACTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGCAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGGATTAGAAACCCCCGTAGTCC\tBacteria\tFirmicutes\tBacilli\tLactobacillales\tLactobacillaceae\tLactobacillus\n+GTGTCAGCAGCCGCGGTAATACGGAGGATCCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGAGCGTAGGTGGACTGGTAAGTCAGTTGTGAAAGTTTGCGGCTCAACCGTAAAATTGCAGTTGATACTGTCAGTCTTGAGTACAGTAGAGGTGGGCGGAATTCGTGGTGTAGCGGTGAAATGCTTAGATATCACGAAGAACTCCGATTGCGAAGGCAGCTCACTGGACTGCAACTGACACTGATGCTCGAAAGTGTGGGTATCAAACAGGATTAGAAACCCCCGTAGTCC\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tBacteroidaceae\tBacteroides\n+GTGTCAGCAGCCGCGGTAATACGTAGGGTGCAAGCGTTATCCGGAATTATTGGGCGTAAAGGGCTCGTAGGCGGTTCGTCGCGTCCGGTGTGAAAGTCCATCGCTTAACGGTGGATCCGCGCCGGGTACGGGCGGGCTTGAGTGCGGTAGGGGAGACTGGAATTCCCGGTGTAACGGTGGAATGTGTAGATATCGGGAAGAACACCAATGGCGAAGGCAGGTCTCTGGGCCGTTACTGACGCTGAGGAGCGAAAGCGTGGGGAGCGAACAGGATTAGAAACCCCAGTAGTCC\tBacteria\tActinobacteriota\tActinobacteria\tBifidobacteriales\tBifidobacteriaceae\tBifidobacterium\n+GTGTCAGCAGCCGCGGTAATACGGAGGATCCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGAGCGTAGATGGATGTTTAAGTCAGTTGTGAAAGTTTGCGGCTCAACCGTAAAATTGCAGTTGATACTGGATATCTTGAGTGCAGTTGAGGCAGGCGGAATTCGTGGTGTAGCGGTGAAATGCTTAGATATCACGAAGAACTCCGATTGCGAAGGCAGCCTGCTAAGCTGCAACTGACATTGAGGCTCGAAAGTGTGGGTATCAAACAGGATTAGATACCCCCGTAGTCC\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tBacteroidaceae\tBacteroides\n+GTGTCAGCAGCCGCGGTAATACGTATGGTGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGTAGACGGTTGTGTAAGTCTGATGTGAAAGCCCGGGGCTCAACCCCGGGACTGCATTGGAAACTATGTAACTAGAGTGTCGGAGAGGTAAGCGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCTTACTGGACGATCACTGACGTTGAGGCTCGAAAGCGTGGGGAGCAAACAGGATTAGATACCCGCGTAGTCC\tBacteria\tFirmicutes\tClostridia\tLachnospirales\tLachnospiraceae\tTyzzerella\n+GTGTCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGATACCCCCGTAGTCC\tBacteria\tProteobacteria\tGammaproteobacteria\tEnterobacterales\tEnterobacteriaceae\tEscherichia/Shigella\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGCGCAGGCGGAAAGATAAGTCTGATGTGAAAGCCCCCGGCTTAACCGAGGAATTGCATCGGAAACTGTGTTTCTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGTAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGGATTAGATACCCCCGTAGTCC\tBacteria\tFirmicutes\tBacilli\tLactobacillales\tLactobacillaceae\tLactobacillus\n+GTGTCAGCAGCCGCGGTAATACGTAGGGGGCAAGCGTTATCCGGATTTACTGGGTGTAAAGGGAGCGTAGACGGCATGGCAAGCCAGATGTGAAAGCCCGGGGCTCAACCCCGGGACTGCATTTGGAACTGTCAGGCTAGAGTGTCGGAGAGGAAAGCGGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAACACCAGTGGCGAAGGCGGCTTTCTGGACGATGACTGACGTTGAGGCTCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCCCGTAGTCC\tBacteria\tFirmicutes\tClostridia\tLachnospirales\tLachnospiraceae\tNA\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGAATTATTGGGCGTAAAGGGCTCGCAGGCGGTTCCTTAAGTCTGATGTGAAAGCCCCCGGCTCAACCGGGGAGGGTCATTGGAAACTGGGGAACTTGAGTGCAGAAGAGGAGAGTGGAATTCCACGTGTAGCGGTGAAATGCGTAGAGATGTGGAGGAACACCAGTGGCGAAGGCGACTCTCTGGTCTGTAACTGACGCTGAGGAGCGAAAGCGTGGGGAGCGAACAGGATTAGAAACCCCAGTAGTCC\tBacteria\tFirmicutes\tBacilli\tBacillales\tBacillaceae\tBacillus\n+GTGTCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCCCGTAGTCC\tBacteria\tProteobacteria\tGammaproteobacteria\tEnterobacterales\tEnterobacteriaceae\tEscherichia/Shigella\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGCGCAGGCGGAAAGATAAGTCTGATGTGAAAGCCCCCGGCTTAACCGAGGAATTGCATCGGAAACTGTGTTTCTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACAC'..b'CTGACGCTGAGGAGCGAAAGCGTGGGGAGCGAACAGGATTAGAAACCCCCGTAGTCC\tBacteria\tActinobacteriota\tActinobacteria\tBifidobacteriales\tBifidobacteriaceae\tBifidobacterium\n+GTGTCAGCAGCCGCGGTAATACGTAGGGTGCGAGCGTTGTCCGGAATTACTGGGCGTAAAGGGCTCGTAGGTGGTTTGTCGCGTCGTCTGTGAAATTCTGGGGCTTAACTCCGGGCGTGCAGGCGATACGGGCATAACTTGAGTGCTGTAGGGGTAACTGGAATTCCTGGTGTAGCGGTGAAATGCGCAGATATCAGGAGGAACACCGATGGCGAAGGCAGGTTACTGGGCAGTTACTGACGCTGAGGAGCGAAAGCATGGGTAGCGAACAGGATTAGATACCCCAGTAGTCC\tBacteria\tActinobacteriota\tActinobacteria\tCorynebacteriales\tCorynebacteriaceae\tCorynebacterium\n+GTGTCAGCAGCCGCGGTAATACGTAGGTGGCAAGCGTTGTCCGGATTTATTGGGCGTAAAGCGAGCGCAGGCGGAAAGATAAGTCTGATGTGAAAGCCCCCGGCTTAACCGAGGAATTGCATCGGAAACTGTGTTTCTTGAGTGCAGAAGAGGAGAGTGGAACTCCATGTGTAGCGGTGGAATGCGTAGATATATGGAAGAACACCAGTGGCGAAGGCGGCTCTCTGGTCTGTAACTGACGCTGAGGCTCGAAAGCATGGGTAGCGAACAGGATTAGATACCCTAGTAGTCC\tBacteria\tFirmicutes\tBacilli\tLactobacillales\tLactobacillaceae\tLactobacillus\n+GTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCCCGTAGTCC\tBacteria\tProteobacteria\tGammaproteobacteria\tEnterobacterales\tEnterobacteriaceae\tEscherichia/Shigella\n+GTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCTTGTAGTCC\tBacteria\tProteobacteria\tGammaproteobacteria\tEnterobacterales\tEnterobacteriaceae\tEscherichia/Shigella\n+GTGTCAGCAGCCGCGGTAATACGAAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCGCGTAGGTGGTTCAGCAAGTTGGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCCAAAACTACTGAGCTAGAGTACGGTAGAGGGTGGTGGAATTTCCTGTGTAGCGGTGAAATGCGTAGATATGTGGAGGAACACCAGTGGCGAAGGCGACTCTCTGGTCTGTAACTGACGCTGAGGCGCGAAAGCGTGGGGAGCAAACAGGATTAGAAACCCGCGTAGTCC\tBacteria\tProteobacteria\tGammaproteobacteria\tPseudomonadales\tPseudomonadaceae\tAzorhizophilus\n+GTGCCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTAATCGGAATTACTGGGCGTAAAGCGCACGCAGGCGGTTTGTTAAGTCAGATGTGAAATCCCCGGGCTCAACCTGGGAACTGCATCTGATACTGGCAAGCTTGAGTCTCGTAGAGGGGGGTAGAATTCCAGGTGTAGCGGTGAAATGCGTAGAGATCTGGAGGAATACCGGTGGCGAAGGCGGCCCCCTGGACGAAGACTGACGCTCAGGTGCGAAAGCGTGGGGAGCAAACAGGATTAGATACCCCCGTAGTCC\tBacteria\tProteobacteria\tGammaproteobacteria\tEnterobacterales\tEnterobacteriaceae\tEscherichia/Shigella\n+GTGTCAGCAGCCGCGGTAATACGTAGGGGGCTAGCGTTATCCGGAATTACTGGGCGTAAAGGGTGCGTAGGTGGTTTCTTAAGTCAGAGGTGAAAGGCTACGGCTCAACCGTAGTAAGCCTTTGAAACTGAGAAACTTGAGTGCAGGAGAGGAGAGTAGAATTCCTAGTGTAGCGGTGAAATGCGTAGATATTAGGAGGAATACCAGTTGCGAAGGCGGCTCTCTGGACTGTAACTGACACTGAGGCACGAAAGCGTGGGGAGCAAACAGGATTAGATACCCGCGTAGTCC\tBacteria\tFirmicutes\tClostridia\tPeptostreptococcales-Tissierellales\tPeptostreptococcaceae\tRomboutsia\n+GTGTCAGCAGCCGCGGTGATACGTAGGGTGCGAGCGTTGTCCGGATTTATTGGGCGTAAAGGGCTCGTAGGTGGTTGATCGCGTCGGAAGTGTAATCTTGGGGCTTAACCCTGAGCGTGCTTTCGATACGGGTTGACTTGAGGAAGGTAGGGGAGAATGGAATTCCTGGTGGAGCGGTGGAATGCGCAGATATCAGGAGGAACACCAGTGGCGAAGGCGGTTCTCTGGGCCTTTCCTGACGCTGAGGAGCGAAAGCGTGGGGAGCGAACAGGCTTAGATACCCCTGTAGTCC\tBacteria\tActinobacteriota\tActinobacteria\tPropionibacteriales\tPropionibacteriaceae\tCutibacterium\n+GTGTCAGCAGCCGCGGTAATACGGAGGATGCGAGCGTTATCCGGATTTATTGGGTTTAAAGGGTGCGTAGGCGGACTGTCAAGTCAGCGGTAAAATTGAGAGGCTCAACCTCTTCGAGCCGTTGAAACTGGCGGTCTTGAGTGAGCGAGAAGTACGCGGAATGCGTGGTGTAGCGGTGAAATGCATAGATATCACGCAGAACTCCGATTGCGAAGGCAGCGTACCGGCGCTCAACTGACGCTCATGCACGAAAGCGTGGGTATCGAACAGGATTAGATACCCCCGTAGTCC\tBacteria\tBacteroidota\tBacteroidia\tBacteroidales\tMuribaculaceae\tNA\n+GTGTCAGCAGCCGCGGTAATACGGAGGGTGCAAGCGTTATCCGGATTCACTGGGTTTAAAGGGTGCGTAGGCGGGCGTATAAGTCAGTGGTGAAATCCTGGAGCTTAACTCCAGAACTGCCATTGATACTATATGTCTTGAATATGGTGGAGGTAAGCGGAATATGTCATGTAGCGGTGAAATGCATAGATATGACATAGAACACCTATTGCGAAGGCAGCTTACTACGCCTATATTGACGCTGAGGCACGAAAGCGTGGGGATCAAACAGGATTAGAAACCCGAGTAGTCC\tBacteria\tBacteroidota\tBacteroidia\tChitinophagales\tChitinophagaceae\tAsinibacterium\n' |