snp-dists
github.com/tseemann/snp-distsPairwise SNP distance matrix from a FASTA sequence alignment
Sourced from
- GitHub — github.com/tseemann/snp-dists
- bio.tools — snp-dists
Related resources
Freely available tools for biological computing in Python, with included cookbook, packaging and thorough documentation. Part of the [Open Bioinformatics Foundation](http://open-bio.org/). Contains the very useful [Entrez](https://biopython.org/DIST/docs/api/Bio.Entrez-module.html) package for API access to the NCBI databases.
Deep learning-based variant caller
Minimap2 is an pairwise aligner for genomic and spliced nucleotide sequences. It can perform the assembly-to-assembly alignment, and works with gzip'd FASTQ, FASTA formats. It also finds overlaps between long-reads.
Burrow-Wheeler Aligner for pairwise alignment between DNA sequences.
Toolkit for processing sequences in FASTA/Q formats.