Alternatives and similar repositories for human_host_filtration

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

• althonos / pyfastani
  Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
  ☆23Updated last month
• bo1929 / krepp
  A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.
  ☆16Updated this week
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆31Updated 4 months ago
• metagenopolis / meteor
  Meteor is a plateform for quantitative metagenomics profiling of complex ecosystems. Meteor relies on genes catalogue to perform species-…
  ☆29Updated 2 weeks ago
• balabanmetin / uDance
  ☆42Updated last year
• bluenote-1577 / fairy
  alignment-free coverage calculation for metagenomic binning >100 times faster
  ☆48Updated 8 months ago
• pollardlab / MIDAS
  Metagenomic Intra-Species Diversity Analysis (MIDAS)
  ☆39Updated last year
• alienzj / gtdb2ncbi
  GTDB => NCBI
  ☆15Updated last year
• KoslickiLab / YACHT-reproducibles
  A repo to reproduce the experiments in the YACHT manuscript
  ☆11Updated 2 years ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆39Updated 8 months ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆31Updated last year
• broadinstitute / StrainGE
  strain-level analysis tools
  ☆39Updated last year
• steineggerlab / ufcg
  UFCG: Universal Fungal Core Genes
  ☆34Updated 4 months ago
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆27Updated 3 months ago
• jolespin / leviathan
  Leviathan: A fast, memory-efficient, and scalable taxonomic and pathway profiler for (pan)genome-resolved metagenomics and metatranscript…
  ☆11Updated this week
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆33Updated 3 months ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆53Updated 4 years ago
• bacpop / CELEBRIMBOR
  Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs
  ☆25Updated last year
• mathjeff / Mapper
  Genomic sequence aligner
  ☆33Updated last month
• metasnv-tool / metaSNV
  MetaSNV, a metagenomic SNV calling pipeline.
  ☆20Updated 3 years ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆57Updated 7 months ago
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆20Updated 11 months ago
• aaronmussig / PhyloDM
  Efficient calculation of phylogenetic distance matrices.
  ☆48Updated last year
• unipept / FragGeneScanRs
  Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.
  ☆30Updated 2 months ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆33Updated 11 months ago
• kangxiongbin / StrainXpress
  StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…
  ☆13Updated last year
• cruizperez / FastAAI
  ☆24Updated 10 months ago
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆29Updated last year
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆44Updated this week
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆27Updated 2 years ago