Fixed: CheckIlluminaDirectory now creates symlinks only if necessary Fix plot_coverage for cases where an alignment has very high coverage dept
A set of scripts and tools for the analysis of viral NGS data. More detailed documentation can be f...
New: illumina.common_barcodes now reports Illumina index names in addition to barcode sequences. Ex...
New: scaffolder uses ambiguous alignments when no unambiguous ones exist (#904) add function to ass...
New: The functions to plot coverage in reports.py can now limit graph bounds via --plotXLimits and ...
A set of scripts and tools for the analysis of viral NGS data. More detailed documentation can be f...
Changed: Improved HiSeq X / HiSeq 4000 compatibility: broken symlinks are now removed from Illumina...
New features: reports.py plot_coverage — creates a coverage plot for a mapped .bam file. Multiple...
Fixed: Fix issues related to Trinity on certain environments (#900) allow for flexibility in gatk v...
Fixed: two issues corrected in using bwa mem for alignment (see commit) Changed: a few internal f...
Changed: improve handling of possible feature table IDs [#846] Fixed: genome feature annotation t...
Fixed: fix position output for genome features falling oob during annotation in snakemake pipeline:...
New: binned coverage plot option in reports.py align_and_plot via --binLargePlots (#957) (thanks to...
New: Improvements to the pipeline to support single-end reads in additional stages, including the d...
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...
A set of scripts and tools for the analysis of viral NGS data. More detailed documentation can be f...
New: illumina.common_barcodes now reports Illumina index names in addition to barcode sequences. Ex...
New: scaffolder uses ambiguous alignments when no unambiguous ones exist (#904) add function to ass...
New: The functions to plot coverage in reports.py can now limit graph bounds via --plotXLimits and ...
A set of scripts and tools for the analysis of viral NGS data. More detailed documentation can be f...
Changed: Improved HiSeq X / HiSeq 4000 compatibility: broken symlinks are now removed from Illumina...
New features: reports.py plot_coverage — creates a coverage plot for a mapped .bam file. Multiple...
Fixed: Fix issues related to Trinity on certain environments (#900) allow for flexibility in gatk v...
Fixed: two issues corrected in using bwa mem for alignment (see commit) Changed: a few internal f...
Changed: improve handling of possible feature table IDs [#846] Fixed: genome feature annotation t...
Fixed: fix position output for genome features falling oob during annotation in snakemake pipeline:...
New: binned coverage plot option in reports.py align_and_plot via --binLargePlots (#957) (thanks to...
New: Improvements to the pipeline to support single-end reads in additional stages, including the d...
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...
A set of scripts and tools for the analysis of viral NGS data. More detailed documentation can be f...
New: illumina.common_barcodes now reports Illumina index names in addition to barcode sequences. Ex...
New: scaffolder uses ambiguous alignments when no unambiguous ones exist (#904) add function to ass...
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