Alternatives and similar repositories for panqc

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

• pierrepeterlongo / back_to_sequences
  ☆45Updated last month
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆52Updated 5 months ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 4 months ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆20Updated 7 months ago
• aesheppard / TETyper
  transposable element typing pipeline
  ☆19Updated last year
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆40Updated last month
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆30Updated 2 months ago
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆24Updated 2 years ago
• bacpop / mandrake
  Mandrake 🌿/👨‍🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding
  ☆38Updated 6 months ago
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆61Updated 3 weeks ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆34Updated 3 months ago
• mahulchak / mscaffolder
  A comparative genome scaffolding tool
  ☆16Updated 6 years ago
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆29Updated 2 years ago
• phac-nml / neptune
  Neptune: Genomic Signature Discovery
  ☆20Updated 10 months ago
• rnajena / poseidon
  PoSeiDon: positive selection detection and recombination analysis pipeline
  ☆38Updated last week
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 7 years ago
• taxburst / taxburst
  sunburst plots for taxonomy - working to update Krona
  ☆40Updated last month
• gcgreenberg / LexicHash
  A novel method for sequence similarity estimation
  ☆28Updated last year
• KatyBrown / plot_phylo
  Python package to plot a phylogenetic tree on an existing matplotlib axis.
  ☆24Updated 2 months ago
• d-j-e / SNPPar
  Parallel/Homoplasic SNP Finder
  ☆21Updated 2 years ago
• EnzoAndree / FastMLST
  ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies
  ☆27Updated last month
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆25Updated 6 years ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated 10 months ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆50Updated 3 years ago
• SouthGreenPlatform / panache
  Panache is a web-based interface designed for the visualization of linearized pangenomes. It can be used to show presence/absence informa…
  ☆45Updated 2 years ago
• broadinstitute / GATK-for-Microbes
  ☆29Updated 3 years ago
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆31Updated 2 weeks ago
• pollardlab / MIDAS
  Metagenomic Intra-Species Diversity Analysis (MIDAS)
  ☆39Updated last year
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆22Updated 2 years ago
• treangenlab / Olivar
  Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens
  ☆29Updated 3 weeks ago