beardymcjohnface / Koverage
Quickly get coverage statistics given reads and an assembly
☆13Updated 8 months ago
Alternatives and similar repositories for Koverage:
Users that are interested in Koverage are comparing it to the libraries listed below
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 6 years ago
- Code to create a PRG from a Multiple Sequence Alignment file☆22Updated 9 months ago
- Plasmid analysis using rearrangement distances☆31Updated 2 months ago
- Fast viral consensus genome reconstruction☆22Updated last month
- software to identify primers that can distinguish genomes☆20Updated 2 months ago
- Genome size estimation from long read overlaps☆47Updated last month
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆29Updated 4 months ago
- Visualize microbial evolution at the SNP level!☆14Updated 2 months ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆22Updated 8 months ago
- Bacterial taxonomy construction and evaluation in R☆13Updated 11 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆48Updated 6 months ago
- Strain-level taxonomic classification of metagenomic data using pangenome graphs☆22Updated last month
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated last month
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆24Updated 9 months ago
- Rapid discovery of reciprocal best blast pairs.☆10Updated 2 months ago
- Colinear block visualisation tool☆30Updated last year
- A pipeline for bioinformatics analysis of bacterial genomes☆19Updated 6 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 2 months ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆21Updated last month
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…☆41Updated 3 weeks ago
- In silico taxonomic classification of Bacillus cereus group genomes using whole-genome sequencing data☆19Updated 8 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆41Updated last month
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆22Updated 5 months ago
- tool to determine optimal refrerence genome given a set of fasta files☆14Updated last year
- metagenome population recombination rate estimation pipeline☆12Updated 5 months ago
- A streamlined workflow and GUI for real-time species identification and pathogen characterization via nanopore sequencing data. Engineere…☆15Updated 3 months ago
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆27Updated 2 weeks ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 5 months ago