Alternatives and similar repositories for msamtools

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

• EBI-Metagenomics / mettannotator
  ☆80Updated last week
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• weisberglab / beav
  BEAV: Bacterial Element Annotation reVamped
  ☆72Updated 3 months ago
• snayfach / MAGpurify
  Improvement of metagenome-assembled genomes
  ☆54Updated 5 years ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆62Updated 2 years ago
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆70Updated 2 weeks ago
• nvelden / geneviewer
  An R package designed for drawing gene arrow maps
  ☆92Updated 2 months ago
• xiaoli-dong / metaerg
  ☆40Updated 4 years ago
• metaGmetapop / metapop
  A pipeline for the macro- and micro-diversity analyses and visualization of metagenomic-derived populations
  ☆43Updated 2 years ago
• mdsufz / MuDoGeR
  MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.
  ☆88Updated last year
• endixk / ezaai
  EzAAI - High Throughput Prokaryotic AAI Calculator
  ☆44Updated 4 months ago
• Microbial-Ecology-Group / AMRplusplus
  AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resis…
  ☆44Updated this week
• ziyewang / MetaBinner
  ☆60Updated last year
• allind / EukDetect
  ☆54Updated 5 months ago
• christophertbrown / iRep
  scripts for estimating bacteria replication rates based on population genome copy number variation
  ☆73Updated 5 years ago
• shenwei356 / gtdb-taxdump
  GTDB taxonomy taxdump files with trackable TaxIds
  ☆56Updated 7 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated last month
• EBI-Metagenomics / EukCC
  Tool to estimate genome quality of microbial eukaryotes
  ☆38Updated 4 months ago
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆62Updated 2 years ago
• ziyewang / COMEBin
  ☆63Updated last year
• hildebra / lotus2
  Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.
  ☆54Updated 5 months ago
• gatech-genemark / MetaGeneMark-2
  MetaGeneMark-2: Improved Gene Prediction in Metagenomes
  ☆22Updated last year
• snayfach / MicrobeCensus
  MicrobeCensus estimates the average genome size of microbial communities from metagenomic data
  ☆47Updated 5 years ago
• linxingchen / cobra
  A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…
  ☆81Updated 3 months ago
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆32Updated this week
• bvalot / pyMLST
  whole genome MLST analysis
  ☆50Updated 5 months ago
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆85Updated 2 years ago
• hoelzer / pocp
  Calculation of the Percentage of Conserved Proteins following Qin, Xie et al. 2014 but using DIAMOND instead of BLASTP for alignments.
  ☆27Updated 7 months ago
• treangenlab / emu
  ☆74Updated last month
• leylabmpi / Struo2
  Scalable creating/updating of metagenome profiling databases
  ☆62Updated 5 months ago