gbouras13 / pypolcaLinks
Standalone Python re-implementation of the POLCA polisher from MaSuRCA
☆36Updated 4 months ago
Alternatives and similar repositories for pypolca
Users that are interested in pypolca are comparing it to the libraries listed below
Sorting:
- Genome size estimation from long read overlaps☆59Updated 2 weeks ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆60Updated last month
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Recombination-free trees☆59Updated 4 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆52Updated 3 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated last week
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆48Updated last week
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 2 weeks ago
- Plasmid analysis using rearrangement distances☆45Updated 2 months ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆26Updated 2 weeks ago
- Colinear block visualisation tool☆31Updated last year
- reference-based long read assemblies of bacterial genomes☆50Updated 3 years ago
- Bacterial GWAS analysis☆43Updated 2 weeks ago
- Microbial agile accurate SNP Typer☆30Updated last year
- Intra-species bacterial contamination detection☆25Updated 5 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆29Updated 9 months ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆25Updated 2 weeks ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 3 months ago
- Calculate assocations between genes and traits☆25Updated 4 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆26Updated 2 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆37Updated 2 months ago
- Genomewide Epistasis Analysis on Bacteria☆14Updated 2 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated 2 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆21Updated 6 years ago
- Split k-mer analysis – version 2☆87Updated 2 weeks ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- ☆24Updated 6 months ago