stjudecloud / workflowsLinks
Bioinformatics workflows developed for and used on the St. Jude Cloud project.
☆37Updated last week
Alternatives and similar repositories for workflows
Users that are interested in workflows are comparing it to the libraries listed below
Sorting:
- Portable WDL workflows for IDseq production pipelines☆32Updated 3 years ago
- simple comparison of snakemake, nextflow and cromwell/wdl☆50Updated 5 years ago
- [Alpha] Janis: an open source tool to machine generate type-safe CWL and WDL workflows☆45Updated 2 years ago
- A nextflow pipeline to perform state-of-the-art genome-wide association studies.☆73Updated 5 months ago
- CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.☆41Updated last week
- conda recipes for genomic data☆84Updated 4 years ago
- Create WDL documentation using Markdown.☆28Updated last week
- Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…☆45Updated 3 years ago
- Preprocessing tools for unique molecular index (UMI) sequencing reads☆31Updated 2 years ago
- Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.☆51Updated 7 years ago
- Cancer Predisposition Sequencing Reporter (CPSR)☆61Updated this week
- Thousand Variant Callers Project Repository☆73Updated 5 years ago
- Workflow Description Language compiler for the DNAnexus platform☆42Updated 2 years ago
- Tools for next-generation sequencing analysis☆89Updated 6 years ago
- An awk-like VCF parser☆56Updated last year
- Super small biological datasets for unit testing☆61Updated 5 years ago
- BigWig manpulation tools using libBigWig and htslib☆29Updated last year
- Workflows for germline short variant discovery in WGS data. PairedEndSingleSampleWf has been superseded in Broad production by https://gi…☆56Updated 5 years ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆49Updated 6 years ago
- Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer☆49Updated last week
- Multi-sample somatic variant caller☆52Updated 3 years ago
- A python package and a set of shell commands to handle GTF files☆49Updated last year
- filtering trio-based genetic variants in VCFs for clinical review☆21Updated 5 years ago
- A pipelining tool to automate and standardise bioinformatics analyses on cluster environments.☆98Updated 2 years ago
- Workflows for converting between sequence data formats☆38Updated 4 years ago
- fast webservices based query tool for large sets of genomic features☆25Updated 4 months ago
- A read extraction and realignment tool for next generation sequencing data☆103Updated 2 years ago
- Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19☆78Updated last year
- rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis☆57Updated 3 months ago
- Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline☆57Updated 5 years ago