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comparison test-data/strict_anno_stats.txt @ 2:9ca209477dfd draft default tip

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planemo upload for repository https://github.com/Onnodg/Naturalis_NLOOR/tree/main/NLOOR_scripts/process_annotations_tool commit 4017d38cf327c48a6252e488ba792527dae97a70-dirty
author onnodg
date Mon, 15 Dec 2025 16:43:36 +0000
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1:2acf82433aa4 2:9ca209477dfd
1 Starting processing for FASTA
2 === PARAMETERS USED ===
3 uncertain_threshold: 0.95
4 eval_threshold: 1e-20
5 use_counts: False
6 ignore_rank: unknown
7 ignore_taxonomy: environmental
8 bitscore_perc_cutoff: 0.0
9 min_bitscore: 150
10 ignore_obiclean_type: singleton
11 ignore_illuminapairend_type: pairend
12 min_identity: 98
13 min_coverage: 95
14 ignore_seqids:
15 min_support: 1
16 === END PARAMETERS ===
17 Filtered FASTA written succesfully(4682 sequences)
18 FASTA: total headers: 4725
19 FASTA: headers kept after filters and min_support=1: 4682
20 FASTA: removed due to header filters (illumina/obiclean/etc.): 43
21 FASTA: removed due to low dereplicated count (<1): 0
22 FASTA: total invalid (header filter + low support): 43
23 Reading BLAST annotations
24 BLAST: total hits read: 38539
25 BLAST: hits kept after quality filters: 10244
26 BLAST: hits filtered (evalue/coverage/identity/bitscore): 28295
27 BLAST: hits removed due to invalid taxon: 0
28 BLAST: hits removed due to ignored seqids: 0
29 ANNOTATION: total FASTA headers considered: 4682
30 ANNOTATION: reads with BLAST hits: 1635
31 ANNOTATION: reads without BLAST hits: 3047
32 ANNOTATION: unique annotated count (from header counts): 89087
33 ANNOTATION: total unique count (from FASTA): 111525
34 Header annotations written succesfully
35 === ANNOTATION STATISTICS ===
36 percentage_annotated: 34.6031746031746
37 annotated_sequences: 1635
38 total_sequences: 4725
39 percentage_unique_annotated: 79.88074422775162
40 unique_annotated: 89087
41 total_unique: 111525