Alternatives and similar repositories for mcutils

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

• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated last month
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• fritzsedlazeck / nibSV
  Kmer based genotyper for short reads.
  ☆23Updated 4 years ago
• jts / mbtools
  ☆14Updated 2 years ago
• DecodeGenetics / read_haps
  Detects human contamination in bam files
  ☆16Updated 5 years ago
• jmonlong / sveval
  Functions to compare a SV call sets against a truth set.
  ☆30Updated 7 months ago
• jbelyeu / PlotCritic
  Python deployment tool for bespoke image curation projects, oriented toward scientific projects. Please cite https://academic.oup.com/gig…
  ☆13Updated 3 years ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆26Updated last year
• collaborativebioinformatics / GeneVar
  ☆12Updated 4 years ago
• VGP / vgp-tools
  ☆28Updated 9 months ago
• ksahlin / BESST_RNA
  Scaffolding of genomic assemblies with RNA seq data
  ☆15Updated 10 years ago
• Parsoa / Nebula
  Ultra-efficient mapping-free structural variation genotyper
  ☆20Updated 4 years ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆15Updated 7 years ago
• mskilab-org / pgv
  Pan gGnome Viewer
  ☆10Updated 6 months ago
• SchulzLab / ORNA
  Fast in-silico normalization algorithm for NGS data
  ☆23Updated 4 years ago
• photocyte / plot_mitochondrial_genome_with_CIRCOS
  ☆16Updated 8 years ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 5 years ago
• tobiasrausch / lorax
  A long-read analysis toolbox for cancer and population genomics
  ☆23Updated 6 months ago
• CMU-SAFARI / FastRemap
  FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…
  ☆26Updated 3 years ago
• fritzsedlazeck / sge_mummer
  Scripts to split reference and run mummer in parallel on an SGE cluster
  ☆11Updated 9 years ago
• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated 5 months ago
• luntergroup / polyploid
  Benchmarking variant calling in polyploids
  ☆15Updated 4 years ago
• DecodeGenetics / LRcaller
  ☆16Updated 4 years ago
• sinamajidian / phaseme
  A tool set to assess the quality of the per read phasing and reduce the errors.
  ☆13Updated 5 years ago
• thegenemyers / PHASE-MERS
  Utilities to detect and profile `het-kmers`
  ☆12Updated last year
• kcleal / svbench
  Benchmark structural variant calls against a reference set
  ☆18Updated 2 weeks ago
• fritzsedlazeck / SURVIVOR_ant
  A framework to annotate SVs with previous known SVs (vcf file) and or with genomic features (gff and or bed files)
  ☆13Updated 7 years ago
• lh3 / unicall
  A wrapper for calling small variants from human germline high-coverage single-sample Illumina data
  ☆14Updated 6 years ago
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• zhixingfeng / iGDA
  Detect and phase minor SNVs from long-read sequencing data
  ☆14Updated 4 years ago