Quickstart install for:
[Fresh Install]
[Update Existing]
conda env create --name genome-sampler-amplicon-2024.10 --file https://raw.githubusercontent.com/caporaso-lab/genome-sampler/refs/heads/dev/environment-files/genome-sampler-qiime2-amplicon-2024.10.ymlActivate your environment (amplicon-2024.10) and run:
conda env update --file https://raw.githubusercontent.com/caporaso-lab/genome-sampler/refs/heads/dev/environment-files/genome-sampler-qiime2-amplicon-2024.10.yml[Fresh Install]
[Update Existing]
conda env create --name genome-sampler-amplicon-2024.10 --file https://raw.githubusercontent.com/caporaso-lab/genome-sampler/refs/heads/dev/environment-files/genome-sampler-qiime2-amplicon-2024.10.ymlActivate your environment (amplicon-2024.10) and run:
conda env update --file https://raw.githubusercontent.com/caporaso-lab/genome-sampler/refs/heads/dev/environment-files/genome-sampler-qiime2-amplicon-2024.10.yml[Fresh Install]
[Update Existing]
conda env create --name genome-sampler-amplicon-2024.10 --file https://raw.githubusercontent.com/caporaso-lab/genome-sampler/refs/heads/dev/environment-files/genome-sampler-qiime2-amplicon-2024.10.ymlActivate your environment (amplicon-2024.10) and run:
conda env update --file https://raw.githubusercontent.com/caporaso-lab/genome-sampler/refs/heads/dev/environment-files/genome-sampler-qiime2-amplicon-2024.10.yml[Fresh Install]
[Update Existing]
conda env create --name genome-sampler-amplicon-2024.10 --file https://raw.githubusercontent.com/caporaso-lab/genome-sampler/refs/heads/dev/environment-files/genome-sampler-qiime2-amplicon-2024.10.ymlActivate your environment (amplicon-2024.10) and run:
conda env update --file https://raw.githubusercontent.com/caporaso-lab/genome-sampler/refs/heads/dev/environment-files/genome-sampler-qiime2-amplicon-2024.10.ymlTools for sampling from collections of genomes.
- version:
2025.02.0+2.g48f92d9 - website: https://
genome -sampler .readthedocs .io - user support:
- Please post to the QIIME 2 forum for help with this plugin: https://
forum .qiime2 .org - citations:
- Bolyen et al., 2020
Actions¶
| Name | Type | Short Description |
|---|---|---|
| sample-random | method | Sample IDs at random. |
| sample-longitudinal | method | Sample dates uniformly across time |
| sample-neighbors | method | Sample context sequences that are near-neighbors of focal sequences. |
| sample-diversity | method | Identify a divergent collection of context sequences. |
| filter-seqs | method | Filter sequences. |
| combine-selections | method | Combine id selections. |
| mask | method | Mask alignment |
| label-seqs | method | Re-label aligned sequences |
| summarize-selections | visualizer | Summarize one or more selections. |
Artifact Classes¶
FeatureData[Selection] |
AlignmentMask |
Formats¶
IDSelectionDirFmt |
GISAIDDNAFASTAFormat |
VCFMaskFormat |
VCFMaskDirFmt |
Tools for sampling from collections of genomes.
- version:
2025.02.0+2.g48f92d9 - website: https://
genome -sampler .readthedocs .io - user support:
- Please post to the QIIME 2 forum for help with this plugin: https://
forum .qiime2 .org - citations:
- Bolyen et al., 2020
Actions¶
| Name | Type | Short Description |
|---|---|---|
| sample-random | method | Sample IDs at random. |
| sample-longitudinal | method | Sample dates uniformly across time |
| sample-neighbors | method | Sample context sequences that are near-neighbors of focal sequences. |
| sample-diversity | method | Identify a divergent collection of context sequences. |
| filter-seqs | method | Filter sequences. |
| combine-selections | method | Combine id selections. |
| mask | method | Mask alignment |
| label-seqs | method | Re-label aligned sequences |
| summarize-selections | visualizer | Summarize one or more selections. |
Artifact Classes¶
FeatureData[Selection] |
AlignmentMask |
Formats¶
IDSelectionDirFmt |
GISAIDDNAFASTAFormat |
VCFMaskFormat |
VCFMaskDirFmt |
Tools for sampling from collections of genomes.
- version:
2025.02.0+2.g48f92d9 - website: https://
genome -sampler .readthedocs .io - user support:
- Please post to the QIIME 2 forum for help with this plugin: https://
forum .qiime2 .org - citations:
- Bolyen et al., 2020
Actions¶
| Name | Type | Short Description |
|---|---|---|
| sample-random | method | Sample IDs at random. |
| sample-longitudinal | method | Sample dates uniformly across time |
| sample-neighbors | method | Sample context sequences that are near-neighbors of focal sequences. |
| sample-diversity | method | Identify a divergent collection of context sequences. |
| filter-seqs | method | Filter sequences. |
| combine-selections | method | Combine id selections. |
| mask | method | Mask alignment |
| label-seqs | method | Re-label aligned sequences |
| summarize-selections | visualizer | Summarize one or more selections. |
Artifact Classes¶
FeatureData[Selection] |
AlignmentMask |
Formats¶
IDSelectionDirFmt |
GISAIDDNAFASTAFormat |
VCFMaskFormat |
VCFMaskDirFmt |
Tools for sampling from collections of genomes.
- version:
2025.02.0+2.g48f92d9 - website: https://
genome -sampler .readthedocs .io - user support:
- Please post to the QIIME 2 forum for help with this plugin: https://
forum .qiime2 .org - citations:
- Bolyen et al., 2020
Actions¶
| Name | Type | Short Description |
|---|---|---|
| sample-random | method | Sample IDs at random. |
| sample-longitudinal | method | Sample dates uniformly across time |
| sample-neighbors | method | Sample context sequences that are near-neighbors of focal sequences. |
| sample-diversity | method | Identify a divergent collection of context sequences. |
| filter-seqs | method | Filter sequences. |
| combine-selections | method | Combine id selections. |
| mask | method | Mask alignment |
| label-seqs | method | Re-label aligned sequences |
| summarize-selections | visualizer | Summarize one or more selections. |
Artifact Classes¶
FeatureData[Selection] |
AlignmentMask |
Formats¶
IDSelectionDirFmt |
GISAIDDNAFASTAFormat |
VCFMaskFormat |
VCFMaskDirFmt |
Tools for sampling from collections of genomes.
- version:
2025.02.0+2.g48f92d9 - website: https://
genome -sampler .readthedocs .io - user support:
- Please post to the QIIME 2 forum for help with this plugin: https://
forum .qiime2 .org - citations:
- Bolyen et al., 2020
Actions¶
| Name | Type | Short Description |
|---|---|---|
| sample-random | method | Sample IDs at random. |
| sample-longitudinal | method | Sample dates uniformly across time |
| sample-neighbors | method | Sample context sequences that are near-neighbors of focal sequences. |
| sample-diversity | method | Identify a divergent collection of context sequences. |
| filter-seqs | method | Filter sequences. |
| combine-selections | method | Combine id selections. |
| mask | method | Mask alignment |
| label-seqs | method | Re-label aligned sequences |
| summarize-selections | visualizer | Summarize one or more selections. |
Artifact Classes¶
FeatureData[Selection] |
AlignmentMask |
Formats¶
IDSelectionDirFmt |
GISAIDDNAFASTAFormat |
VCFMaskFormat |
VCFMaskDirFmt |
Tools for sampling from collections of genomes.
- version:
2025.02.0+2.g48f92d9 - website: https://
genome -sampler .readthedocs .io - user support:
- Please post to the QIIME 2 forum for help with this plugin: https://
forum .qiime2 .org - citations:
- Bolyen et al., 2020
Actions¶
| Name | Type | Short Description |
|---|---|---|
| sample-random | method | Sample IDs at random. |
| sample-longitudinal | method | Sample dates uniformly across time |
| sample-neighbors | method | Sample context sequences that are near-neighbors of focal sequences. |
| sample-diversity | method | Identify a divergent collection of context sequences. |
| filter-seqs | method | Filter sequences. |
| combine-selections | method | Combine id selections. |
| mask | method | Mask alignment |
| label-seqs | method | Re-label aligned sequences |
| summarize-selections | visualizer | Summarize one or more selections. |
Artifact Classes¶
FeatureData[Selection] |
AlignmentMask |
Formats¶
IDSelectionDirFmt |
GISAIDDNAFASTAFormat |
VCFMaskFormat |
VCFMaskDirFmt |
Tools for sampling from collections of genomes.
- version:
2025.02.0+2.g48f92d9 - website: https://
genome -sampler .readthedocs .io - user support:
- Please post to the QIIME 2 forum for help with this plugin: https://
forum .qiime2 .org - citations:
- Bolyen et al., 2020
Actions¶
| Name | Type | Short Description |
|---|---|---|
| sample-random | method | Sample IDs at random. |
| sample-longitudinal | method | Sample dates uniformly across time |
| sample-neighbors | method | Sample context sequences that are near-neighbors of focal sequences. |
| sample-diversity | method | Identify a divergent collection of context sequences. |
| filter-seqs | method | Filter sequences. |
| combine-selections | method | Combine id selections. |
| mask | method | Mask alignment |
| label-seqs | method | Re-label aligned sequences |
| summarize-selections | visualizer | Summarize one or more selections. |
Artifact Classes¶
FeatureData[Selection] |
AlignmentMask |
Formats¶
IDSelectionDirFmt |
GISAIDDNAFASTAFormat |
VCFMaskFormat |
VCFMaskDirFmt |
Tools for sampling from collections of genomes.
- version:
2025.02.0+2.g48f92d9 - website: https://
genome -sampler .readthedocs .io - user support:
- Please post to the QIIME 2 forum for help with this plugin: https://
forum .qiime2 .org - citations:
- Bolyen et al., 2020
Actions¶
| Name | Type | Short Description |
|---|---|---|
| sample-random | method | Sample IDs at random. |
| sample-longitudinal | method | Sample dates uniformly across time |
| sample-neighbors | method | Sample context sequences that are near-neighbors of focal sequences. |
| sample-diversity | method | Identify a divergent collection of context sequences. |
| filter-seqs | method | Filter sequences. |
| combine-selections | method | Combine id selections. |
| mask | method | Mask alignment |
| label-seqs | method | Re-label aligned sequences |
| summarize-selections | visualizer | Summarize one or more selections. |
Artifact Classes¶
FeatureData[Selection] |
AlignmentMask |
Formats¶
IDSelectionDirFmt |
GISAIDDNAFASTAFormat |
VCFMaskFormat |
VCFMaskDirFmt |
- Links
- Documentation
- Source Code
- Stars
- 6
- Last Commit
- 48f92d9
- Available Distros
- 2024.10
- 2024.10/amplicon