patidarr / ngs_pipelineLinks
Exome/Capture/RNASeq Pipeline Implementation using snakemake
☆47Updated 7 years ago
Alternatives and similar repositories for ngs_pipeline
Users that are interested in ngs_pipeline are comparing it to the libraries listed below
Sorting:
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆97Updated 4 years ago
- This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…☆55Updated 4 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 6 years ago
- QDNAseq package for Bioconductor☆52Updated last year
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆72Updated 4 years ago
- identifying mutational significance in cancer genomes☆61Updated 2 years ago
- tools to find circRNAs in RNA-seq data☆44Updated 7 years ago
- Tumor Mutational Burden☆61Updated 2 months ago
- ☆72Updated 2 years ago
- Documenting usage and experience with bioinformatic tools☆40Updated 10 years ago
- Characterization of Germline variants☆98Updated 3 years ago
- Relevant papers for CNV and SV approaches☆94Updated 11 months ago
- Reference data: BED files, genes, transcripts, variations.☆85Updated 7 years ago
- A pipeline for analyzing DNA methylation data from bisulfite sequencing.☆70Updated 3 years ago
- A tool for the calculation of RNA-editing index for RNA seq data☆45Updated last year
- ☆21Updated 3 weeks ago
- This package computes informative enrichment and quality measures for ChIP-seq/DNase-seq/FAIRE-seq/MNase-seq data. It can also be used to…☆60Updated 5 years ago
- Snakemake based pipeline for RNA-Seq analysis☆31Updated 6 years ago
- ☆89Updated 4 years ago
- An R package for inferring the subclonal architecture of tumors☆122Updated last year
- This repo has been archived, these workflows are still available in the GATK repository under the scripts directory. The workflows are al…☆77Updated 5 years ago
- ☆38Updated 4 years ago
- Precision HLA typing from next-generation sequencing data☆72Updated 2 months ago
- ⛏ HLA predictions from NGS shotgun data☆54Updated 4 months ago
- piRNA pipeline collection developed in the Zamore Lab and ZLab in UMass Med School☆61Updated 3 months ago
- REDItools are python scripts to investigate RNA editing at genomic scale.☆68Updated 2 months ago
- R package designed to simplify structural variant analysis☆73Updated 3 years ago
- Collection of CGAT NGS Pipelines☆43Updated 6 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 7 years ago
- Microsatellite instability (MSI) detection for tumor only data.☆110Updated last year