Alternatives and similar repositories for covld:

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

• ryanlayer / svv
  Stupid Simple Structural Variant View
  ☆25Updated 8 years ago
• bioinform / breakseq2
  BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants
  ☆24Updated 9 years ago
• JialiUMassWengLab / laSV
  laSV is a software package that employs local assembly to detect structural variations from whole-genome high-throughput sequencing datas…
  ☆12Updated 8 years ago
• mklarqvist / djinn
  C++ library for analysing and storing large-scale cohorts of sequence variant data
  ☆17Updated 5 years ago
• lh3 / unicall
  A wrapper for calling small variants from human germline high-coverage single-sample Illumina data
  ☆13Updated 5 years ago
• slzarate / parliament2
  Runs a combination of tools to generate structural variant calls on short-read whole-genome sequencing data
  ☆20Updated 3 years ago
• lh3 / trimadap
  Fast but inaccurate adapter trimmer for Illumina reads
  ☆14Updated 3 years ago
• dnanexus / IndexTools
  IndexTools is a toolkit for extremely fast NGS analysis based on index files.
  ☆17Updated 2 years ago
• HurlesGroupSanger / DeNovoWEST
  ☆21Updated 3 weeks ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• namsyvo / IVC
  Integrated Variant Caller
  ☆17Updated 7 years ago
• lh3 / sgdp-fermi
  FermiKit small variant calls for public SGDP samples
  ☆17Updated 8 years ago
• lh3 / rtgeval
  Wrapper for RTG's vcfeval; DEPRECATED!
  ☆21Updated 8 years ago
• ALLBio / allbiotc2
  Benchmark pipeline for Structural Variation analyses, funded by the ALLBio.
  ☆24Updated 10 years ago
• DecodeGenetics / read_haps
  Detects human contamination in bam files
  ☆16Updated 4 years ago
• karel-brinda / rnftools
  RNF framework for NGS: simulation of reads, evaluation of mappers, conversion of RNF-compliant data.
  ☆14Updated 6 years ago
• walaj / svlib
  Toolkit for extracting SVs from long sequences and benchmarking variant callers
  ☆13Updated 8 years ago
• DecodeGenetics / BamHash
  ☆37Updated 4 years ago
• quinlan-lab / ccrhtml
  A small repo for storing the code for making the files and html for CCRs.
  ☆22Updated 5 years ago
• raphael-group / NAIBR
  Novel Adjacency Identification with Barcoded Reads
  ☆13Updated 2 years ago
• vibansal / hapcut
  program for haplotype phasing from sequence reads and related tools
  ☆25Updated 6 years ago
• langmead-lab / reference_flow
  Reducing reference bias using multiple population reference genomes
  ☆32Updated 10 months ago
• oscarlr / MsPAC
  Phase reads, assemble haplotypes and detect SVs
  ☆19Updated 4 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 5 months ago
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated last month
• favorov / stereogene
  ☆12Updated 3 months ago
• lganel / SVScore
  Prioritize structural variants based on CADD scores
  ☆29Updated 4 years ago
• mchaisso / mcutils
  ☆12Updated 3 years ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated 6 months ago
• dpastling / plethora
  Copy number estimation of highly duplicated sequences
  ☆10Updated 7 years ago