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:
- QDNAseq package for Bioconductor☆50Updated 10 months ago
- Documenting usage and experience with bioinformatic tools☆41Updated 9 years ago
- tools to find circRNAs in RNA-seq data☆43Updated 7 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆97Updated 4 years ago
- Relevant papers for CNV and SV approaches☆94Updated 7 months ago
- This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…☆53Updated 4 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆60Updated 5 years ago
- ☆78Updated 11 years ago
- CNV screening and annotation tool☆25Updated 8 years ago
- ☆69Updated last year
- Somatic copy number analysis using WGS paired end wholegenome sequencing☆71Updated 4 years ago
- Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data☆69Updated 9 months ago
- R package designed to simplify structural variant analysis☆72Updated 3 years ago
- Scripts involved in our workflow for detecting CNVs from WGS data using read depth-based methods☆46Updated 2 years ago
- identifying mutational significance in cancer genomes☆61Updated 2 years ago
- Tumor Mutational Burden☆58Updated 9 months ago
- ☆53Updated 2 years ago
- ☆41Updated last year
- Reference data: BED files, genes, transcripts, variations.☆83Updated 7 years ago
- A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.☆35Updated 3 years ago
- 10x Genomics Linked-Read Diploid De Novo Assembler☆65Updated 6 years ago
- Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2☆29Updated 7 years ago
- ☆30Updated 6 years ago
- A package for quantifying transposable elements at a locus level for RNAseq datasets.☆26Updated 4 months ago
- R package for inferring copy number from read depth☆32Updated 2 years ago
- QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.☆32Updated 9 years ago
- An awk-like VCF parser☆56Updated last year
- Somatic copy variant caller (CNV) for next generation sequencing☆70Updated 8 months ago
- A standalone end-to-end data analysis pipeline for Duplex Sequencing☆20Updated last year
- Snakemake based pipeline for RNA-Seq analysis☆31Updated 5 years ago