luntergroup / octopus
Bayesian haplotype-based mutation calling
☆306Updated last year
Alternatives and similar repositories for octopus:
Users that are interested in octopus are comparing it to the libraries listed below
- structural variant calling and genotyping with existing tools, but, smoothly.☆241Updated 7 months ago
- Toolset for SV simulation, comparison and filtering☆370Updated last year
- GRIDSS: the Genomic Rearrangement IDentification Software Suite☆263Updated last year
- Structural variation and indel detection by local assembly☆240Updated 2 months ago
- Variant calling and somatic mutation/CNV detection for next-generation sequencing data☆155Updated last year
- a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads☆213Updated 2 years ago
- VarDict☆192Updated last year
- Plot structural variant signals from many BAMs and CRAMs☆536Updated 6 months ago
- RTG Tools: Utilities for accurate VCF comparison and manipulation☆306Updated 8 months ago
- Annotation and Ranking of Structural Variation☆231Updated 2 weeks ago
- Miscellaneous collection of Python and R scripts for processing Iso-Seq data☆261Updated last year
- This Snakemake pipeline implements the GATK best-practices workflow☆245Updated last year
- Count bases in BAM/CRAM files☆310Updated 3 years ago
- Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data☆208Updated 4 years ago
- Structural variant toolkit for VCFs☆337Updated this week
- Fast and accurate gene fusion detection from RNA-Seq data☆231Updated 2 months ago
- A structural variation pipeline for short-read sequencing☆177Updated this week
- software tools for haplotype assembly from sequence data☆214Updated 5 months ago
- A tool set for short variant discovery in genetic sequence data.☆194Updated 3 years ago
- lumpy: a general probabilistic framework for structural variant discovery☆319Updated 2 years ago
- Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls☆195Updated 3 years ago
- Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads☆200Updated 3 months ago
- A minimap2 frontend for PacBio native data formats☆178Updated last month
- Workflows for germline short variant discovery with GATK4☆133Updated 3 years ago
- Reads simulator☆268Updated 3 years ago
- BEDOPS: high-performance genomic feature operations☆308Updated last year
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆295Updated 10 months ago
- annotate a VCF with other VCFs/BEDs/tabixed files☆367Updated last year
- tools for adding mutations to existing .bam files, used for testing mutation callers☆238Updated 3 months ago
- classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF☆209Updated 6 months ago