ncbi-gpipe / pgap

Related projects ⓘ

Alternatives and complementary repositories for pgap

• Gardner-BinfLab / deltaBS
  Quantifying the significance of genetic variation using probabilistic profile-based methods.
  ☆17Updated 3 years ago
• ctmrbio / BACTpipe
  BACTpipe: An assembly and annotation pipeline for bacterial genomics
  ☆20Updated 2 years ago
• typhoidgenomics / genotyphi
  Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)
  ☆22Updated last month
• scwatts / genome_painter
  Paint genomes with taxa-specific k-mer probabilities
  ☆15Updated 2 years ago
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆25Updated last year
• COMBINE-lab / RapClust
  Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes
  ☆30Updated 5 months ago
• marbl / gingr
  ☆13Updated 11 months ago
• drpowell / FriPan
  Interactive, web tool for exploring pan-genome of bacterial strains
  ☆45Updated last year
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 5 years ago
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆24Updated 9 months ago
• institut-de-genomique / NaS
  NaS is a hybrid approach developped to take advantage of data generated using MinION device. We combine Illumina and Oxford Nanopore tech…
  ☆15Updated 7 years ago
• bede / kindel
  Indel-aware consensus from aligned BAMs
  ☆20Updated last year
• svm-zhang / AGOUTI
  Annotated Genome Optimization Using Transcriptome Information
  ☆20Updated 4 years ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆29Updated this week
• zhaoc1 / nanoflow
  Bioinformatics pipeline for nanopore sequencing data
  ☆10Updated 5 years ago
• ansariazim / treeBreaker
  Algorithm to divide a phylogenetic tree into segments based on phenotypes at the leaves of the tree
  ☆25Updated 6 years ago
• SR-Martin / alvis
  ☆19Updated 11 months ago
• eclarke / komplexity
  A method of assessing sequence complexity based on kmer frequencies
  ☆28Updated 6 years ago
• TGenNorth / NASP
  Northern Arizona SNP Pipeline
  ☆19Updated 3 weeks ago
• alexiswl / poreduck
  A comprehensive toolkit for running Oxford Nanopore's MinION
  ☆12Updated 6 years ago
• aesheppard / TETyper
  transposable element typing pipeline
  ☆16Updated 8 months ago
• jfass / apc
  (a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join
  ☆11Updated 3 years ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆22Updated 7 months ago
• nickloman / poredb
  ☆19Updated 7 years ago
• CAMI-challenge / CAMITAX
  CAMITAX: Taxon labels for microbial genomes
  ☆29Updated 11 months ago
• rrwick / Compare-annotations
  A script for comparing old vs new versions of genome annotations
  ☆20Updated last year
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆20Updated 3 years ago
• HadrienG / nanoflow
  De novo assembly of nanopore reads using nextflow
  ☆20Updated 4 years ago
• SilvioWeging / kASA
  kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding
  ☆23Updated last year