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sexcmd

A fork of SEXCMD repository

sexcmdworkflow

wdl wrapper for SEXCMD tool. Identification of donor's sex using fastq inputs

shesmu

Decision-driven action launching system

shesmu_simulation_olives

Olives modified to run in the Shesmu simulator

sigprofiler

WDL implemention of SigProfilerExtractor by AlexandrovLab

smallbamqc

Generate BAM file metrics for OICR's QC Gates as fast as possible

smmipqc

Set up manual smMip QC analyses

smmipqcreport

Scripts to generate a summary table with QC metrics for each smMIP libraries

smmipregionfinder

smmipsworkflow

Workflow for analysis of smMIP libraries

sniffles

Workflow to run Structural Variant caller for Nanopore

somnus

Service inhibitor service

star

Workflow for STAR RNAseq aligner

star-seqr

OICR implementation of STAR-SEQR

starfusion

Workflow that takes a fastq pair or optionally a chimeric file from STAR and detects RNA-seq fusion events.

starmulti

strelka

Workflow to run Strelka1 for variant calling

strelkasomatic

Strelka2 somatic variant calling workflow

svtools

Tools for processing and analyzing structural variants.

swap_caller

t1k

tape-archiving

Scripts meant to prepare a project for archiving, encrypt it using GPG, verify the output, and then send it to CommVault to write to tape

timetracker

Simple, easy to use, open source time tracking system.

tmbanalysis

A workflow to align fastq reads, call variants, annotate and assess TMB

tomcat-maven-plugin

Mirror of Apache Tomcat Maven plugin

trust4

analysis of antibody diversity, .wdl wrapper workflow

umicollapse

umiCollapse workflow, generating umi deduplicated bam file and stats

umiconsensus

Workflow to generate consensus sequence bases on UMIs using consensusCruncher.

umiextract

workflow to extract UMI from fastq files and place in fastq header

umiqc

QC workflow to assess UMI components