Mercurial > repos > q2d2 > qiime2__dada2__denoise_paired
changeset 7:53a7856cfafc draft default tip
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__dada2 commit 9436cc47c72b58a6a3d3a5c2ee075689c2926ef0
| author | q2d2 |
|---|---|
| date | Tue, 15 Jul 2025 21:48:36 +0000 |
| parents | efafec3b4e06 |
| children | |
| files | qiime2__dada2__denoise_paired.xml test-data/denoise_paired.test0.demux-paired.qza test-data/denoise_single.test0.demux-single.qza |
| diffstat | 3 files changed, 6 insertions(+), 4 deletions(-) [+] |
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--- a/qiime2__dada2__denoise_paired.xml Mon May 05 18:42:28 2025 +0000 +++ b/qiime2__dada2__denoise_paired.xml Tue Jul 15 21:48:36 2025 +0000 @@ -6,17 +6,17 @@ --> <!-- This tool was automatically generated by: - q2galaxy (version: 2025.4.0) + q2galaxy (version: 2025.7.0) for: - qiime2 (version: 2025.4.0) + qiime2 (version: 2025.7.0) --> -<tool name="qiime2 dada2 denoise-paired" id="qiime2__dada2__denoise_paired" version="2025.4.0+q2galaxy.2025.4.0" profile="22.05" license="BSD-3-Clause"> +<tool name="qiime2 dada2 denoise-paired" id="qiime2__dada2__denoise_paired" version="2025.7.0+q2galaxy.2025.7.0" profile="22.05" license="BSD-3-Clause"> <description>Denoise and dereplicate paired-end sequences</description> <xrefs> <xref type="bio.tools">qiime2</xref> </xrefs> <requirements> - <container type="docker">quay.io/qiime2/amplicon:2025.4</container> + <container type="docker">quay.io/qiime2/amplicon:2025.7</container> </requirements> <version_command>q2galaxy version dada2</version_command> <command detect_errors="exit_code">q2galaxy run dada2 denoise_paired '$inputs'</command> @@ -39,6 +39,8 @@ <param name="max_ee_r" type="float" value="2.0" label="max_ee_r: Float" help="[default: 2.0] Reverse reads with number of expected errors higher than this value will be discarded."/> <param name="trunc_q" type="integer" value="2" label="trunc_q: Int" help="[default: 2] Reads are truncated at the first instance of a quality score less than or equal to this value. If the resulting read is then shorter than `trunc_len_f` or `trunc_len_r` (depending on the direction of the read) it is discarded."/> <param name="min_overlap" type="integer" min="4" value="12" label="min_overlap: Int % Range(4, None)" help="[default: 12] The minimum length of the overlap required for merging the forward and reverse reads."/> + <param name="max_merge_mismatch" type="integer" value="0" label="max_merge_mismatch: Int" help="[default: 0] The maximum number of mismatches allowed in the overlap region when merging reads. If 0, only exact overlaps are allowed."/> + <param name="trim_overhang" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="trim_overhang: Bool" help="[default: No] If TRUE, "overhangs" in the alignment after merging are trimmed off. "Overhangs" are when the reverse read extends past the start of the forward read, and vice-versa, as can happen when reads are longer than the amplicon and read into the other-direction primer region."/> <param name="pooling_method" type="select" label="pooling_method: Str % Choices('independent', 'pseudo')" display="radio"> <option value="independent" selected="true">independent</option> <option value="pseudo">pseudo</option>