Changed: Demultiplexing from Illumina basecalls is now more permissive of varying input directory [dev-related] conda package and Docker image are now built on each branch commit Fixed: [dev-related] package and docker build now optimized for more rapid built+test --notemp added to Snakemake call script to support usage of --immediate-submit as required by newer Snakemake versions Snakemake pipeline demux fixed -l h_rt=hh:mm:ss spec now consistently using
New: added common_barcodes command to illumina.py to write a report of the barcodes present in a r...
new features: most task runtime blocks now support cromwell auto memory scaling/retry automated dat...
A set of scripts and tools for the analysis of viral NGS data. More detailed documentation can be f...
New: The Snakemake pipeline can now source database files from S3, GS, or SFTP if given protocol-pr...
New: The Snakemake pipeline can now source database files from S3, GS, or SFTP if given protocol-pr...
This is a release with many changes, including new WDL pipelines, a distribution of viral-ngs on DNA...
What's Changed Feature changes CDC SC2 viral pipeline updates (parameters, reporting, QC) by @dpark...
New: Improvements to the pipeline to support single-end reads in additional stages, including the d...
New: New BWA-based LCA metagenomics function: metagenomics. align_rna() Align to metagenomics bwa i...
What's Changed Minor functional updates CDC contractual updates to sarscov2_illumina_full (min cove...
What's Changed new features robustness: allow one retry for gisaid uploader [#395] optimizations ...
New: [Nothing] Fixed: the conda channel order has been corrected to reflect the bioconda-preferre...
Fixed: fix position output for genome features falling oob during annotation in snakemake pipeline:...
What's Changed functionality changes and bug fixes Convert amplicon16S_analysis workflow (QIIME) fr...
New: WDL workflow added to read_utils.wdl::downsample() [#819, #821, #823] WDL workflows added for ...
New: added common_barcodes command to illumina.py to write a report of the barcodes present in a r...
new features: most task runtime blocks now support cromwell auto memory scaling/retry automated dat...
A set of scripts and tools for the analysis of viral NGS data. More detailed documentation can be f...
New: The Snakemake pipeline can now source database files from S3, GS, or SFTP if given protocol-pr...
New: The Snakemake pipeline can now source database files from S3, GS, or SFTP if given protocol-pr...
This is a release with many changes, including new WDL pipelines, a distribution of viral-ngs on DNA...
What's Changed Feature changes CDC SC2 viral pipeline updates (parameters, reporting, QC) by @dpark...
New: Improvements to the pipeline to support single-end reads in additional stages, including the d...
New: New BWA-based LCA metagenomics function: metagenomics. align_rna() Align to metagenomics bwa i...
What's Changed Minor functional updates CDC contractual updates to sarscov2_illumina_full (min cove...
What's Changed new features robustness: allow one retry for gisaid uploader [#395] optimizations ...
New: [Nothing] Fixed: the conda channel order has been corrected to reflect the bioconda-preferre...
Fixed: fix position output for genome features falling oob during annotation in snakemake pipeline:...
What's Changed functionality changes and bug fixes Convert amplicon16S_analysis workflow (QIIME) fr...
New: WDL workflow added to read_utils.wdl::downsample() [#819, #821, #823] WDL workflows added for ...
New: added common_barcodes command to illumina.py to write a report of the barcodes present in a r...
new features: most task runtime blocks now support cromwell auto memory scaling/retry automated dat...
A set of scripts and tools for the analysis of viral NGS data. More detailed documentation can be f...