Alternatives and similar repositories for viridian

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

• gbouras13 / pypolca
  Standalone Python re-implementation of the POLCA polisher from MaSuRCA
  ☆34Updated last month
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆55Updated last month
• phac-nml / rebar
  REcombination BARcode detector.
  ☆13Updated last year
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆51Updated last month
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated last year
• mbhall88 / NanoVarBench
  Evaluating Nanopore-based bacterial variant calling
  ☆18Updated last week
• MDU-PHL / bohra
  A pipeline for bioinformatics analysis of bacterial genomes
  ☆28Updated this week
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆30Updated last week
• OLC-Bioinformatics / ConFindr
  Intra-species bacterial contamination detection
  ☆25Updated 3 months ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆34Updated 5 months ago
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆59Updated 2 months ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆38Updated last month
• rrwick / Verticall
  Recombination-free trees
  ☆58Updated last month
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆40Updated 7 months ago
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆21Updated 7 months ago
• CFSAN-Biostatistics / shigatyper
  CFSAN Shigella Typing Pipeline
  ☆14Updated last year
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated last year
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆27Updated 6 months ago
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆23Updated 2 years ago
• tseemann / scripts
  Miscellaneous Perl scripts from 20 years in microbial bioinformatics
  ☆17Updated 10 months ago
• raufs / skDER
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.
  ☆45Updated 3 weeks ago
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated last week
• andrewjpage / krocus
  Predict MLST directly from uncorrected long reads
  ☆27Updated 3 years ago
• cmmr / EsViritu
  Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data
  ☆24Updated last year
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆29Updated 10 months ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆40Updated 3 weeks ago
• NickJD / ORForise
  Comparison pipeline for Prokaryote Protein Coding Gene Predictors
  ☆23Updated last year
• chrisruis / bammix
  Summarise nucleotide counts at a set of positions in a BAM file to search for mixtures
  ☆13Updated 3 years ago
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆35Updated 3 weeks ago
• KatyBrown / plot_phylo
  Python package to plot a phylogenetic tree on an existing matplotlib axis.
  ☆22Updated 2 months ago