biod / sambamba
Tools for working with SAM/BAM data
☆558Updated 2 months ago
Related projects: ⓘ
- C++ API & command-line toolkit for working with BAM data☆415Updated 2 months ago
- Java utilities for Bioinformatics☆479Updated this week
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆426Updated this week
- Transcript assembly and quantification for RNA-Seq☆365Updated last week
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆379Updated 2 weeks ago
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆368Updated 2 months ago
- Structural variation caller using third generation sequencing☆546Updated last month
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆766Updated 3 months ago
- Pilon is an automated genome assembly improvement and variant detection tool☆340Updated 2 years ago
- Haplotype VCF comparison tools☆406Updated 9 months ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆408Updated 6 months ago
- ☆215Updated 3 months ago
- A single molecule sequence assembler for genomes large and small.☆654Updated this week
- Plot structural variant signals from many BAMs and CRAMs☆512Updated 2 months ago
- Tools to process and analyze deep sequencing data.☆670Updated 2 weeks ago
- Graph-based alignment (Hierarchical Graph FM index)☆470Updated last month
- hybrid assembly pipeline for bacterial genomes☆547Updated last month
- A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…☆462Updated 2 months ago
- Reads simulator☆262Updated 3 years ago
- This Snakemake pipeline implements the GATK best-practices workflow☆239Updated last year
- Strelka2 germline and somatic small variant caller☆355Updated 2 years ago
- Count bases in BAM/CRAM files☆298Updated 2 years ago
- (Not Offical) BBMap short read aligner, and other bioinformatic tools.☆208Updated 3 years ago
- The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants☆445Updated 2 weeks ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆357Updated 9 months ago
- adapter trimmer for Oxford Nanopore reads☆331Updated 4 months ago
- De novo assembler for single molecule sequencing reads using repeat graphs☆766Updated 3 weeks ago
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing☆389Updated last week
- BEDOPS: high-performance genomic feature operations☆295Updated 7 months ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆288Updated 3 months ago