mbhall88 / drprg
Drug Resistance Prediction with Reference Graphs
☆21Updated last year
Alternatives and similar repositories for drprg
Users that are interested in drprg are comparing it to the libraries listed below
Sorting:
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆27Updated last week
- software to identify primers that can distinguish genomes☆21Updated 3 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated last week
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆23Updated 2 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- Remove human reads from a sequencing run☆40Updated 7 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated last month
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆23Updated 6 months ago
- fast, multithreaded sourmash operations: search, compare, and gather.☆22Updated this week
- Genome size estimation from long read overlaps☆55Updated last month
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 6 years ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆25Updated last month
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆34Updated last week
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated this week
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆34Updated last month
- Fast and space-efficient taxonomic classification of long reads☆43Updated last week
- Find Unique genomic Regions☆29Updated last month
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆31Updated last month
- Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification☆12Updated last year
- Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.☆22Updated last month
- Correcting errors in noisy long reads using variation graphs☆51Updated 2 years ago
- strain-level analysis tools☆36Updated 6 months ago
- Evaluating Nanopore-based bacterial variant calling☆18Updated last week
- Code to create a PRG from a Multiple Sequence Alignment file☆25Updated last year
- MetagenOmic read Re-Assigner and abundance quantifier☆19Updated 3 months ago
- Primer design from single genes to whole gene families for unlocking the tree of life☆14Updated last month
- Read contamination removal☆25Updated last year
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆23Updated last year
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 years ago