quinlan-lab / hts-python

Related projects: ⓘ

• rhshah / iCallSV
  A Framework to call Structural Variants from NGS based datasets
  ☆21Updated 6 years ago
• cdarby / samovar
  Somatic (mosaic) SNV caller for 10X Genomics data using random forest classification and feature-based filters
  ☆24Updated 5 years ago
• brentp / geneimpacts
  prioritize effects of variant annotations from VEP, SnpEff, et al.
  ☆33Updated 6 months ago
• BoevaLab / SV-Bay
  Detection of structural variants in cancer mate-pair and paired-end data
  ☆12Updated 5 years ago
• cschin / Write_A_Genome_Assembler_With_IPython
  The repository keeps the files for an IPython notebook on about how to make a simple genome assembler using python
  ☆30Updated 6 years ago
• brentp / gsort
  sort genomic data
  ☆35Updated 4 years ago
• ryanlayer / svv
  Stupid Simple Structural Variant View
  ☆25Updated 7 years ago
• aganezov / RCK
  RCK: Reconstruction of clone- and haplotype-specific Cancer Karyotypes
  ☆16Updated 4 years ago
• mbhall88 / pafpy
  A lightweight library for working with PAF (Pairwise mApping Format) files
  ☆31Updated 2 years ago
• quinlan-lab / pathoscore
  pathoscore evaluates variant pathogenicity tools and scores.
  ☆21Updated 2 years ago
• mtw / Bio-ViennaNGS
  A Perl extension and collection of utilities for Next-Generation Sequencing (NGS) data analysis
  ☆23Updated 5 years ago
• BenLangmead / qtip
  Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
  ☆24Updated 4 years ago
• ProSolo / prosolo
  ProSolo, variant calling from single cell DNA-seq data, or: bulk backing vocals for single cell solos.
  ☆22Updated 3 years ago
• AstraZeneca-NGS / simple_sv_annotation
  Simplify snpEff annotations for interesting cases
  ☆21Updated 5 years ago
• raphael-group / NAIBR
  Novel Adjacency Identification with Barcoded Reads
  ☆14Updated 2 years ago
• AlgoLab / HapCHAT
  Adaptive haplotype assembly for efficiently leveraging high coverage in long reads
  ☆12Updated 6 years ago
• jeremymcrae / clinical-filter
  filtering trio-based genetic variants in VCFs for clinical review
  ☆20Updated 4 years ago
• bcgsc / SSAKE
  🍶 Genome assembly with short sequence reads
  ☆24Updated 8 months ago
• quinlan-lab / ccrhtml
  A small repo for storing the code for making the files and html for CCRs.
  ☆22Updated 4 years ago
• osilander / bonito_benchmarks
  Benchmarking bonito basecaller using E. coli assemblies
  ☆11Updated 3 years ago
• AlistairNWard / vcfPytools
  vcf file manipulation
  ☆20Updated 9 years ago
• brentp / hts-python
  pythonic wrapper for libhts (moved to: https://github.com/quinlan-lab/hts-python)
  ☆49Updated 7 years ago
• namsyvo / IVC
  Integrated Variant Caller
  ☆17Updated 6 years ago
• WGLab / SVGen
  Simulator for structural variants in various types of next-generation sequencing data
  ☆8Updated 7 years ago
• brentp / tnsv
  add true-negative SVs from a population callset to a truth-set.
  ☆15Updated 2 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated 8 months ago
• bioinform / breakseq2
  BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants
  ☆23Updated 8 years ago
• lh3 / rtgeval
  Wrapper for RTG's vcfeval; DEPRECATED!
  ☆21Updated 8 years ago
• NDBL / HECIL
  Hybrid Error Correction of Long Reads using Iterative Learning
  ☆10Updated 5 years ago
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 3 years ago