biod / sambambaLinks
Tools for working with SAM/BAM data
☆595Updated 8 months ago
Alternatives and similar repositories for sambamba
Users that are interested in sambamba are comparing it to the libraries listed below
Sorting:
- Plot structural variant signals from many BAMs and CRAMs☆545Updated last year
- Haplotype VCF comparison tools☆442Updated last year
- DELLY2: Structural variant discovery by integrated paired-end and split-read analysis☆485Updated last month
- C++ API & command-line toolkit for working with BAM data☆429Updated 4 months ago
- Strelka2 germline and somatic small variant caller☆381Updated 3 years ago
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆433Updated last month
- Transcript assembly and quantification for RNA-Seq☆459Updated 3 weeks ago
- Java utilities for Bioinformatics☆512Updated 2 weeks ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆383Updated 2 weeks ago
- Structural variant and indel caller for mapped sequencing data☆440Updated 2 years ago
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆398Updated last month
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆325Updated 3 months ago
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆842Updated 3 months ago
- Count bases in BAM/CRAM files☆317Updated 3 years ago
- This Snakemake pipeline implements the GATK best-practices workflow☆259Updated 2 years ago
- Graph-based alignment (Hierarchical Graph FM index)☆510Updated last week
- fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing☆771Updated this week
- TransDecoder source☆297Updated 3 weeks ago
- A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…☆523Updated 2 weeks ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆452Updated last year
- Reads simulator☆281Updated 4 years ago
- A single molecule sequence assembler for genomes large and small.☆689Updated 2 weeks ago
- An accurate GFF3/GTF lift over pipeline☆504Updated 2 years ago
- GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more☆434Updated 8 months ago
- A flexible framework for rapid genome analysis and interpretation☆317Updated 2 years ago
- Structural variation caller using third generation sequencing☆615Updated 3 weeks ago
- Data and analysis for NA12878 genome on nanopore☆396Updated 2 years ago
- ☆266Updated 3 weeks ago
- BEDOPS: high-performance genomic feature operations☆351Updated 4 months ago
- The next version of bwa-mem☆781Updated 2 months ago