brentp / mosdepthLinks
fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
☆786Updated last month
Alternatives and similar repositories for mosdepth
Users that are interested in mosdepth are comparing it to the libraries listed below
Sorting:
- fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"☆293Updated 3 weeks ago
- Transcript assembly and quantification for RNA-Seq☆470Updated last week
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆490Updated 2 months ago
- Plot structural variant signals from many BAMs and CRAMs☆555Updated last year
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆434Updated 2 months ago
- Structural variation caller using third generation sequencing☆624Updated last week
- genetic variant expressions, annotation, and filtering for great good.☆267Updated 2 weeks ago
- Tools for working with SAM/BAM data☆595Updated 10 months ago
- A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…☆527Updated 2 months ago
- This Snakemake pipeline implements the GATK best-practices workflow☆260Updated 2 years ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆454Updated last year
- Read-based phasing of genomic variants, also called haplotype assembly☆387Updated 4 months ago
- Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/☆535Updated last month
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing☆496Updated this week
- Java utilities for Bioinformatics☆510Updated 2 weeks ago
- Toolset for SV simulation, comparison and filtering☆399Updated last year
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆402Updated 3 months ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆849Updated 5 months ago
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more☆443Updated 10 months ago
- Tools to process and analyze deep sequencing data.☆741Updated 3 months ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆385Updated 2 months ago
- Tools for working with genomic and high throughput sequencing data.☆347Updated this week
- Tools for handling Unique Molecular Identifiers in NGS data sets☆528Updated 3 months ago
- Structural variant toolkit for VCFs☆384Updated 3 weeks ago
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆275Updated 2 years ago
- Count bases in BAM/CRAM files☆319Updated 3 years ago
- RNA-seq workflow using STAR and DESeq2☆346Updated last month
- TransDecoder source☆298Updated last month
- Structural variant and indel caller for mapped sequencing data☆447Updated 3 weeks ago
- The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants☆509Updated 2 weeks ago