A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.
☆26Jul 18, 2026Updated 3 weeks ago
Alternatives and similar repositories for krepp
Users that are interested in krepp are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Pipeline which removes human DNA from microbial shotgun samples.☆16Aug 25, 2025Updated 11 months ago
- Snakemake workflow for comparison of differential abundance ranks☆13Mar 22, 2024Updated 2 years ago
- JTK -- a regional diploid genome assembler☆26Apr 22, 2026Updated 3 months ago
- A plant organellar Graphical Fragment Assembly toolkit☆16Sep 10, 2025Updated 11 months ago
- PhaseGrass, a reference-based phasing workflow generating chromosome-level haplotype-resolved diploid assembly for highly heterozygous ge…☆17Jun 2, 2026Updated 2 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Automated strain separation of low-complexity metagenomes☆52Nov 10, 2021Updated 4 years ago
- Visualing species tree from ASTRAL with gene tree discordance☆34Jul 3, 2026Updated last month
- Differential k-mer analysis☆42Jan 29, 2024Updated 2 years ago
- A Rust implementation of sliding window stats over fastas.☆15Jun 4, 2026Updated 2 months ago
- Genome mapping and spliced alignment of cDNA or amino acid sequences☆114Jul 11, 2026Updated last month
- A filter algorithm with program to filter an alignment or mapping file☆12May 15, 2025Updated last year
- De novo chromosome-level scaffolding and phasing tool using Hi-C☆30Nov 23, 2025Updated 8 months ago
- Toolkit for manipulating FASTA and SAM files☆23Mar 14, 2024Updated 2 years ago
- ☆49Sep 5, 2023Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆18Jul 21, 2026Updated 3 weeks ago
- ☆19Mar 20, 2025Updated last year
- ☆16Apr 11, 2026Updated 4 months ago
- Pipeline for analyzing rare mutations in metagenome-assembled genomes☆10Apr 4, 2025Updated last year
- Identification of errors in draft genome assemblies with single-base pair resolution for quality assessment and improvement☆94Dec 3, 2025Updated 8 months ago
- Phasing reads with secondary alignments☆22Nov 30, 2024Updated last year
- Code for assembly approach presented in "Haplotype-resolved assembly of a tetraploid potato genome using long reads and low-depth offspri…☆15Nov 20, 2023Updated 2 years ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated last year
- Implementation of the TreeShrink problem☆58May 28, 2026Updated 2 months ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆18Jan 29, 2025Updated last year
- Fast, parallel Rust implementation of Prodigal for prokaryotic gene prediction in microbial genomes☆29Jul 26, 2026Updated 2 weeks ago
- An Example of Subgenome Phasing for Complex Allopolyploidy☆17Nov 6, 2025Updated 9 months ago
- A scalable framework for automatically indexing microbial genomes and accurately characterizing metagenome-assembled genomes with Sequenc…☆15Aug 4, 2026Updated last week
- Hidden Markov Model based Copy number caller☆20Jul 18, 2026Updated 3 weeks ago
- Computation of average nucleotide identity with the use of MMseqs2☆24Dec 11, 2024Updated last year
- Fast, Cache-Efficient, and Scalable Queries on Pangenomes☆45Mar 9, 2026Updated 5 months ago
- Pathogenfinder2☆18Apr 20, 2026Updated 3 months ago
- ☆27Jul 15, 2026Updated last month
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- ☆42Oct 6, 2025Updated 10 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆69Apr 10, 2025Updated last year
- A tool for sniffing out the differences in vari-Ants☆45Updated this week
- A minimap2 implementation with binseq inputs☆18Dec 11, 2025Updated 8 months ago
- Leviathan: A fast, memory-efficient, and scalable taxonomic and pathway profiler for (pan)genome-resolved metagenomics and metatranscript…☆26Aug 4, 2026Updated last week
- Fast, accurate species tree estimation.☆13Aug 29, 2024Updated last year
- quick qc on long-read alignment files. Show read-length and depth distributions☆23Apr 24, 2026Updated 3 months ago