arq5x / bedtools-protocols
☆78Updated 10 years ago
Related projects: ⓘ
- An awk-like VCF parser☆54Updated 8 months ago
- ☆80Updated this week
- This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…☆50Updated 3 years ago
- RiboDiff: Tool to detect changes in translational efficiency based on ribosome footprinting data☆23Updated 7 years ago
- Building SuperTranscripts: A linear representation of transcriptome data☆67Updated 3 years ago
- Exome/Capture/RNASeq Pipeline Implementation using snakemake☆45Updated 6 years ago
- Toolkit for processing TAB-delimited format☆59Updated 8 years ago
- Filtering and profiling of next-generational sequencing data using region-specific rules☆74Updated 10 months ago
- Counts the number of reads which map to either the reference or alternate allele at each heterozygous SNP.☆23Updated 5 years ago
- 10x Genomics Linked-Read Diploid De Novo Assembler☆64Updated 5 years ago
- Software for clustering de novo assembled transcripts and counting overlapping reads☆68Updated 2 years ago
- Relevant papers for CNV and SV approaches☆94Updated 3 weeks ago
- utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.☆47Updated 5 years ago
- Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.☆94Updated 2 years ago
- A tool to benchmark mappers and different parameters within minutes☆43Updated 5 years ago
- don't get DUP'ed or DEL'ed by your putative SVs.☆100Updated 3 years ago
- Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer☆93Updated 3 years ago
- GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools☆47Updated 4 years ago
- A pipeline for analyzing DNA methylation data from bisulfite sequencing.☆67Updated last year
- processing illumina SNP arrays☆19Updated 7 years ago
- Documenting usage and experience with bioinformatic tools☆39Updated 9 years ago
- QDNAseq package for Bioconductor☆45Updated last month
- Next-Generation Sequencing(NGS) toolkits.☆44Updated 8 years ago
- Tools to handle reads sequenced with unique molecular identifiers (UMIs).☆30Updated 7 years ago
- Create mutation signatures from MAF's, and decompose them into Stratton signatures☆59Updated 5 years ago
- CNV screening and annotation tool☆24Updated 7 years ago
- Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data☆64Updated 2 weeks ago
- BigWig and BAM utilities☆91Updated 5 months ago
- ☆65Updated last year
- R package for inferring copy number from read depth☆30Updated last year