Changes Adds an optional step to trim primers when a bed with primer regions is provided with --primers. This is in particular to ARTIC protocol on Illumina
ivar trim now has -x flag to specify an offset to search for primer positions. This allows for trimm...
Changes: Memory and CPUs are now parametrised more granularily Analysis intervals are now optional ...
In v0.5.12: designing cDNA primers that cover exon-exon junctions is now optional (PR #25) docstri...
Changes Performance improvement by merging the last two steps (SnpEff and bgzip/tabix) into a singl...
First pre-release integrating alignment, mark duplicates, realignment around indels, variant calling...
Changes Added a custom step phasing of clonal mutations. All clonal mutations (ie: clonal/not clona...
Major changes: Add coverage analysis for FASTQ pipeline Add Pfam domain annotations in the outpu...
Changes Integrate pangolin for lineage determination. Integrate VAFator to annotate mutations with ...
Changes Added an initial step of read trimming with FASTP. This also provides a QC report in HTML a...
Changes The GnomAD resource is now optional, in case it is not available or you don't trust how it ...
Annotation of mutated peptide sequences (mps) with published or novel potential neo-epitope descript...
Changes Add support for STAR for RNA-seq alignment Record software versions in the samples outpu
This is a download of the current set of primer schemes for the ARTIC project. adds SARS-CoV-2 sc...
This release introduces a new method of removing primers from sequencing reads. This new method is a...
<p>The primers are composed of sequences specific to the sequencing platform (green), i.e. the P5 ad...
ivar trim now has -x flag to specify an offset to search for primer positions. This allows for trimm...
Changes: Memory and CPUs are now parametrised more granularily Analysis intervals are now optional ...
In v0.5.12: designing cDNA primers that cover exon-exon junctions is now optional (PR #25) docstri...
Changes Performance improvement by merging the last two steps (SnpEff and bgzip/tabix) into a singl...
First pre-release integrating alignment, mark duplicates, realignment around indels, variant calling...
Changes Added a custom step phasing of clonal mutations. All clonal mutations (ie: clonal/not clona...
Major changes: Add coverage analysis for FASTQ pipeline Add Pfam domain annotations in the outpu...
Changes Integrate pangolin for lineage determination. Integrate VAFator to annotate mutations with ...
Changes Added an initial step of read trimming with FASTP. This also provides a QC report in HTML a...
Changes The GnomAD resource is now optional, in case it is not available or you don't trust how it ...
Annotation of mutated peptide sequences (mps) with published or novel potential neo-epitope descript...
Changes Add support for STAR for RNA-seq alignment Record software versions in the samples outpu
This is a download of the current set of primer schemes for the ARTIC project. adds SARS-CoV-2 sc...
This release introduces a new method of removing primers from sequencing reads. This new method is a...
<p>The primers are composed of sequences specific to the sequencing platform (green), i.e. the P5 ad...
ivar trim now has -x flag to specify an offset to search for primer positions. This allows for trimm...
Changes: Memory and CPUs are now parametrised more granularily Analysis intervals are now optional ...
In v0.5.12: designing cDNA primers that cover exon-exon junctions is now optional (PR #25) docstri...
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