q2-vsearch

Formats¶

This plugin wraps the vsearch application, and provides methods for clustering and dereplicating features and sequences.

version: 2024.10.0
website: https://github.com/qiime2/q2-vsearch
user support:: Please post to the QIIME 2 forum for help with this plugin: https://forum.qiime2.org
citations:: Rognes et al., 2016

Actions¶

Name	Type	Short Description
cluster-features-de-novo	method	De novo clustering of features.
cluster-features-closed-reference	method	Closed-reference clustering of features.
dereplicate-sequences	method	Dereplicate sequences.
merge-pairs	method	Merge paired-end reads.
uchime-ref	method	Reference-based chimera filtering with vsearch.
uchime-denovo	method	De novo chimera filtering with vsearch.
fastq-stats	visualizer	Fastq stats with vsearch.
cluster-features-open-reference	pipeline	Open-reference clustering of features.

Artifact Classes¶

Formats¶

This plugin wraps the vsearch application, and provides methods for clustering and dereplicating features and sequences.

version: 2024.10.0
website: https://github.com/qiime2/q2-vsearch
user support:: Please post to the QIIME 2 forum for help with this plugin: https://forum.qiime2.org
citations:: Rognes et al., 2016

Actions¶

Name	Type	Short Description
cluster-features-de-novo	method	De novo clustering of features.
cluster-features-closed-reference	method	Closed-reference clustering of features.
dereplicate-sequences	method	Dereplicate sequences.
merge-pairs	method	Merge paired-end reads.
uchime-ref	method	Reference-based chimera filtering with vsearch.
uchime-denovo	method	De novo chimera filtering with vsearch.
fastq-stats	visualizer	Fastq stats with vsearch.
cluster-features-open-reference	pipeline	Open-reference clustering of features.

Artifact Classes¶

Formats¶

This plugin wraps the vsearch application, and provides methods for clustering and dereplicating features and sequences.

version: 2024.10.0
website: https://github.com/qiime2/q2-vsearch
user support:: Please post to the QIIME 2 forum for help with this plugin: https://forum.qiime2.org
citations:: Rognes et al., 2016

Actions¶

Name	Type	Short Description
cluster-features-de-novo	method	De novo clustering of features.
cluster-features-closed-reference	method	Closed-reference clustering of features.
dereplicate-sequences	method	Dereplicate sequences.
merge-pairs	method	Merge paired-end reads.
uchime-ref	method	Reference-based chimera filtering with vsearch.
uchime-denovo	method	De novo chimera filtering with vsearch.
fastq-stats	visualizer	Fastq stats with vsearch.
cluster-features-open-reference	pipeline	Open-reference clustering of features.

Artifact Classes¶

Formats¶

This plugin wraps the vsearch application, and provides methods for clustering and dereplicating features and sequences.

version: 2024.10.0
website: https://github.com/qiime2/q2-vsearch
user support:: Please post to the QIIME 2 forum for help with this plugin: https://forum.qiime2.org
citations:: Rognes et al., 2016

Actions¶

Name	Type	Short Description
cluster-features-de-novo	method	De novo clustering of features.
cluster-features-closed-reference	method	Closed-reference clustering of features.
dereplicate-sequences	method	Dereplicate sequences.
merge-pairs	method	Merge paired-end reads.
uchime-ref	method	Reference-based chimera filtering with vsearch.
uchime-denovo	method	De novo chimera filtering with vsearch.
fastq-stats	visualizer	Fastq stats with vsearch.
cluster-features-open-reference	pipeline	Open-reference clustering of features.

Artifact Classes¶

Formats¶

This plugin wraps the vsearch application, and provides methods for clustering and dereplicating features and sequences.

version: 2024.10.0
website: https://github.com/qiime2/q2-vsearch
user support:: Please post to the QIIME 2 forum for help with this plugin: https://forum.qiime2.org
citations:: Rognes et al., 2016

Actions¶

Name	Type	Short Description
cluster-features-de-novo	method	De novo clustering of features.
cluster-features-closed-reference	method	Closed-reference clustering of features.
dereplicate-sequences	method	Dereplicate sequences.
merge-pairs	method	Merge paired-end reads.
uchime-ref	method	Reference-based chimera filtering with vsearch.
uchime-denovo	method	De novo chimera filtering with vsearch.
fastq-stats	visualizer	Fastq stats with vsearch.
cluster-features-open-reference	pipeline	Open-reference clustering of features.

Artifact Classes¶

Formats¶

This plugin wraps the vsearch application, and provides methods for clustering and dereplicating features and sequences.

version: 2024.10.0
website: https://github.com/qiime2/q2-vsearch
user support:: Please post to the QIIME 2 forum for help with this plugin: https://forum.qiime2.org
citations:: Rognes et al., 2016

Actions¶

Name	Type	Short Description
cluster-features-de-novo	method	De novo clustering of features.
cluster-features-closed-reference	method	Closed-reference clustering of features.
dereplicate-sequences	method	Dereplicate sequences.
merge-pairs	method	Merge paired-end reads.
uchime-ref	method	Reference-based chimera filtering with vsearch.
uchime-denovo	method	De novo chimera filtering with vsearch.
fastq-stats	visualizer	Fastq stats with vsearch.
cluster-features-open-reference	pipeline	Open-reference clustering of features.

Artifact Classes¶

Formats¶

This plugin wraps the vsearch application, and provides methods for clustering and dereplicating features and sequences.

version: 2024.10.0
website: https://github.com/qiime2/q2-vsearch
user support:: Please post to the QIIME 2 forum for help with this plugin: https://forum.qiime2.org
citations:: Rognes et al., 2016

Actions¶

Name	Type	Short Description
cluster-features-de-novo	method	De novo clustering of features.
cluster-features-closed-reference	method	Closed-reference clustering of features.
dereplicate-sequences	method	Dereplicate sequences.
merge-pairs	method	Merge paired-end reads.
uchime-ref	method	Reference-based chimera filtering with vsearch.
uchime-denovo	method	De novo chimera filtering with vsearch.
fastq-stats	visualizer	Fastq stats with vsearch.
cluster-features-open-reference	pipeline	Open-reference clustering of features.

Artifact Classes¶