bo1929 / kreppLinks
A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.
☆16Updated this week
Alternatives and similar repositories for krepp
Users that are interested in krepp are comparing it to the libraries listed below
Sorting:
- Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.☆23Updated last month
- Extracts subgraphs or components from a graph in GFA format☆25Updated last year
- MEMO: MEM-based pangenome indexing for k-mer queries☆18Updated last year
- ☆20Updated last year
- ☆12Updated 5 months ago
- Better Alignments with Translated HMMER☆23Updated last month
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 7 years ago
- software to identify primers that can distinguish genomes☆20Updated 3 weeks ago
- Long read aligner for cyclic and acyclic pangenome graphs☆39Updated last year
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Updated 3 months ago
- Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)☆35Updated 4 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆24Updated 2 years ago
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Updated 6 years ago
- ☆17Updated 4 months ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆14Updated 6 months ago
- Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…☆12Updated last year
- Manipulate and generate figures for trees in Newick format☆22Updated 3 months ago
- Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs☆31Updated last month
- AlfaPang builds pangenome graphs without alignments or references.☆13Updated last week
- A k-mer search engine for all Sequence Read Archive public accessions☆35Updated last year
- Tool to estimate deltas for sequence sets and answer questions about relative contribution☆21Updated 7 months ago
- Variant call verification☆16Updated 6 months ago
- A Nextflow pipeline for running synteny analysis.☆16Updated 5 months ago
- Compares pangenome graphs by calculating the segmentation distance between two GFA (Graphical Fragment Assembly) files.☆12Updated last month
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆35Updated 6 months ago
- Improved Phased Assembler☆28Updated 3 years ago
- Scaffolding with assembly likelihood optimization☆21Updated 4 years ago
- base-level dotplots from PAF alignments☆27Updated 2 months ago
- Tandem Repeats Finder: a program to analyze DNA sequences☆17Updated 3 months ago
- syncmer graphs, and perhaps other sorts of sequence graphs☆23Updated last week