Alternatives and similar repositories for minimal_representation

Users that are interested in minimal_representation are comparing it to the libraries listed below

• bcbio / bcbio.variation.recall
  Parallel merging, squaring off and ensemble calling for genomic variants
  ☆20Updated 6 years ago
• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆49Updated 6 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago
• arq5x / grabix
  a wee tool for random access into BGZF files.
  ☆85Updated 7 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• rgcgithub / clamms
  CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.
  ☆30Updated 4 years ago
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆67Updated 2 years ago
• Ettwiller / Damage-estimator
  Estimate damage in standard NGS library preparation. Incompatible with library preparation methods from which the imbalance is lost (such…
  ☆54Updated 8 years ago
• brentp / indelope
  find large indels (in the blind spot between GATK/freebayes and SV callers)
  ☆39Updated 7 years ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 4 years ago
• bioinform / metasv
  MetaSV: An accurate and integrative structural-variant caller for next generation sequencing
  ☆58Updated 8 years ago
• pachterlab / kma
  Keep Me Around: Intron Retention Detection
  ☆29Updated 6 years ago
• arq5x / bedtools-protocols
  ☆78Updated 11 years ago
• arq5x / cyvcf
  A fast Python library for VCF files leveraging Cython for speed.
  ☆52Updated 7 years ago
• gatk-workflows / five-dollar-genome-analysis-pipeline
  Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline
  ☆57Updated 5 years ago
• AlexanderDilthey / MHC-PRG
  Population Reference Graphs for the HLA and MHC.
  ☆35Updated 6 years ago
• ngsutils / ngsutils
  Tools for next-generation sequencing analysis
  ☆89Updated 6 years ago
• lh3 / fermi-lite
  Standalone C library for assembling Illumina short reads in small regions
  ☆72Updated 2 years ago
• lh3 / CHM-eval
  ☆54Updated 5 years ago
• macarthur-lab / gnomad_browser
  gnomAD browser pre-ASHG 2018
  ☆33Updated 4 years ago
• OpenGene / MrBam
  Query Mutated Reads from a Bam
  ☆26Updated 6 years ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 3 years ago
• friend1ws / EBCall
  an empirical Bayesian framework for mutation detection from cancer genome sequencing data
  ☆31Updated 9 years ago
• mgymrek / pybamview
  Browser based application for viewing bam alignments
  ☆56Updated 8 years ago
• nf-core / deepvariant
  Please consider using/contributing to https://github.com/nf-core/sarek
  ☆41Updated 4 years ago
• IARCbioinfo / needlestack
  Multi-sample somatic variant caller
  ☆52Updated 3 years ago
• grocsvs / grocsvs
  Genome-wide reconstruction of complex structural variants
  ☆39Updated 3 years ago
• eturro / mmseq
  Haplotype, isoform and gene level expression analysis using multi-mapping RNA-seq reads
  ☆68Updated last year
• kenchen / breakdancer
  SV detection from paired end reads mapping
  ☆38Updated 15 years ago
• biocore-ntnu / epic
  (DEPRECATED) epic: diffuse domain ChIP-Seq caller based on SICER
  ☆31Updated 6 years ago