etal / cnvkitLinks
Copy number variant detection from targeted DNA sequencing
☆601Updated this week
Alternatives and similar repositories for cnvkit
Users that are interested in cnvkit are comparing it to the libraries listed below
Sorting:
- Signal-level algorithms for MinION data☆594Updated 2 years ago
- Cutadapt removes adapter sequences from sequencing reads☆570Updated last month
- Ultra-fast and memory-efficient (meta-)genome assembler☆693Updated 3 months ago
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆442Updated 6 months ago
- scRNAseq analysis notes from Ming Tang☆780Updated last year
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆409Updated 6 months ago
- HiC-Pro: An optimized and flexible pipeline for Hi-C data processing☆430Updated last year
- Tools for handling Unique Molecular Identifiers in NGS data sets☆536Updated last week
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆507Updated 3 months ago
- This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.☆245Updated 3 years ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆460Updated last year
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆278Updated 2 years ago
- Count bases in BAM/CRAM files☆323Updated 4 years ago
- Haplotype VCF comparison tools☆455Updated 2 years ago
- RNA-seq workflow using STAR and DESeq2☆351Updated last month
- STAR-Fusion codebase☆248Updated 4 months ago
- Strelka2 germline and somatic small variant caller☆389Updated 4 years ago
- This Snakemake pipeline implements the GATK best-practices workflow☆262Updated 2 years ago
- Structural variant and indel caller for mapped sequencing data☆458Updated 4 months ago
- Tools to process and analyze deep sequencing data.☆752Updated 6 months ago
- GTEx & TOPMed data production and analysis pipelines☆394Updated 4 months ago
- Transcript assembly and quantification for RNA-Seq☆485Updated last month
- lumpy: a general probabilistic framework for structural variant discovery☆337Updated 3 years ago
- Fast and accurate gene fusion detection from RNA-Seq data☆259Updated 4 months ago
- A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…☆539Updated 3 weeks ago
- Documentation for the ANNOVAR software☆245Updated 6 months ago
- Plot structural variant signals from many BAMs and CRAMs☆558Updated last year
- ☆302Updated 2 weeks ago
- Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.☆398Updated last week
- ChIP-seq peak-calling, QC and differential analysis pipeline.☆230Updated 2 months ago