Alternatives and similar repositories for sword

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

• EvolBioInf / fur
  Find Unique genomic Regions
  ☆32Updated last week
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated last year
• prophyle / prophyle
  Accurate, resource-frugal and deterministic DNA sequence classifier.
  ☆36Updated 2 weeks ago
• iqbal-lab / cortex
  reference free variant assembly
  ☆34Updated 2 years ago
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆24Updated 2 years ago
• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated 5 months ago
• HaploConduct / HaploConduct
  Haplotype-aware genome assembly toolkit
  ☆30Updated 6 years ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆36Updated 6 years ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 5 years ago
• iqbal-lab-org / varifier
  Variant call verification
  ☆16Updated 8 months ago
• rvaser / ra
  This repository is deprecated, please use the link to the right.
  ☆23Updated 7 years ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆36Updated 2 weeks ago
• EGTortuero / viga
  De novo VIral Genome Annotator
  ☆23Updated last week
• gwct / referee
  Reference genome quality scores
  ☆21Updated 5 years ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated 4 months ago
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆39Updated last year
• kdm9 / axe
  Rapid competitive read demulitplexer. Made with tries.
  ☆23Updated 8 months ago
• karel-brinda / samsift
  SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.
  ☆23Updated 4 months ago
• fpusan / SuperPang
  Non-redundant pangenome assemblies from multiple genomes or bins
  ☆15Updated 8 months ago
• camillescott / shmlast
  blast, shmlast
  ☆21Updated 5 years ago
• Gardner-BinfLab / deltaBS
  Quantifying the significance of genetic variation using probabilistic profile-based methods.
  ☆19Updated 4 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆45Updated 5 months ago
• nluhmann / BlastFrost
  ☆44Updated 4 years ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆39Updated 10 months ago
• aesheppard / TETyper
  transposable element typing pipeline
  ☆19Updated last year
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆32Updated 4 years ago
• pirovc / multitax
  Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)
  ☆47Updated 6 months ago
• SwingOlive / kASA
  kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding
  ☆23Updated 2 years ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆56Updated 6 months ago