Alternatives and similar repositories for pango-sequences

Users that are interested in pango-sequences are comparing it to the libraries listed below

• pathoplexus / pathoplexus
  An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.
  ☆39Updated this week
• bede / hostile
  Precise host read removal
  ☆99Updated last month
• nextstrain / avian-flu
  Nextstrain build for avian influenza viruses
  ☆25Updated last week
• Kalan-Lab / zol
  zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)
  ☆59Updated last week
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆49Updated 4 months ago
• iqtree / piqtree
  A Python library that exposes features from IQ-TREE - efficient software for phylogenomic inference
  ☆29Updated this week
• rrwick / Verticall
  Recombination-free trees
  ☆58Updated 2 months ago
• iqbal-lab-org / viridian
  ☆21Updated 3 months ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆38Updated last month
• jodyphelan / tbdb
  Standard database for the TBProfiler tool
  ☆29Updated 2 months ago
• virus-evolution / gofasta
  ☆36Updated last month
• BigDataBiology / argNorm
  ARG normalization by mapping to the ARO ontology.
  ☆57Updated last month
• USDA-VS / GenoFLU
  Influenza data pipeline to automate genotyping assignment
  ☆33Updated this week
• microbinfie-hackathon2020 / CSIS
  Code Safety Inspection Service
  ☆20Updated 2 years ago
• kelwyres / Bactabolize
  ☆38Updated 2 weeks ago
• DOH-JDJ0303 / bigbacter-nf
  Bacterial surveillance pipeline.
  ☆24Updated 3 weeks ago
• fabou-uobaf / VaQuERo
  SARS-CoV-2 (Va)riant (Qu)antification in s(E)wage, designed for (Ro)bustness
  ☆13Updated 3 weeks ago
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆64Updated 2 weeks ago
• MDU-PHL / emmtyper
  emm Automatic Isolate Labeller
  ☆11Updated 2 months ago
• tseemann / phastaf
  Identify phage regions in bacterial genomes for masking purposes
  ☆32Updated 5 years ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆86Updated 3 months ago
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆78Updated 9 months ago
• susiegriggo / Phynteny
  Predict the function of phage hypothetical proteins using an LSTM model trained with Phage Synteny
  ☆50Updated 5 months ago
• Serka-M / mmlong2
  Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
  ☆46Updated 2 months ago
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆121Updated 2 months ago
• UPHL-BioNGS / Grandeur
  UPHL's Reference Free Pipeline
  ☆26Updated 3 weeks ago
• nextgenusfs / funannotate2
  Eukaryotic genome annotation software.
  ☆18Updated last week
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆51Updated last month
• flu-crew / TreeSort
  Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.
  ☆15Updated last month
• Kalan-Lab / lsaBGC
  lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters
  ☆37Updated last month