Python bioinformatics CLI for k-mer counts and de Bruijn graphs
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Updated
May 23, 2024 - Python
Python bioinformatics CLI for k-mer counts and de Bruijn graphs
Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.
A compressed, associative, exact, and weighted dictionary for k-mers.
subset and spaced seed design tool
ultrafast genome querying and taxonomic profiling for metagenomic samples by abundance-corrected minhash.
Detect complete horizontal gene transfer (HGT) event rapidly and accurately from complex metagenomics data.
🧹🦷 aKmerBroom: Ancient oral DNA decontamination using Bloom filters on k-mer sets
A fast and space-efficient pre-filter for querying very large collections of nucleotide sequences.
PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)
An RNA virus strain-level identification tool for short reads.
Telomeric Repeat motif Identification tool with Short-read sequencing
In-memory nucleotide sequence k-mer counting, filtering, graph traversal and more
ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more
simple desktop app that apply some of DNA searching algorithms, with easy use desktop GUI using Pyqt6 lib in python.
🗑️🦷 decOM 🦷🗑️
a versatile toolkit for k-mers with taxonomic information
SEER, reimplemented in python 🐍🔮
Probabilistic genome assembler based on de Bruijn Graph and profile HMM
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