1433 days ago
DnaSP: DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms
DnaSP, DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms using data from...mats generated by some assembler RAD-seq software). DnaSP can estimate several measur...1270 days ago
Applied Computational Genomics Course at UU: Spring 2020
This course will provide a comprehensive introduction to fundamental concepts and ex...nalytical strategies. A diverse range of biological questions enabled by modern DNA sequencing technologies will...1243 days ago
CoverM: Read coverage calculator for metagenomics
CoverM aims to be a configurable, easy to use and fast DNA read coverage and relative abundance calculator focused on metagenomics applications. CoverM calculates coverage of genomes/MAGs ...1115 days ago
Calling variants in non-diploid systems
The main challenge associated with non-diploid variant calling is the difficulty in...rly attempts to do this well have been accomplished on human mitochondrial DNA although the same approa...1057 days ago
Kmer: a suite of tools for DNA sequence analysis
More at https://help.rc.ufl.edu/doc/Kmer This also includes: A2Amapper: ATA...wo different genomes (cross species). Sim4db: Spliced alignment of cDNA and genomic sequences, from t...1005 days ago
1005 days ago
k-mers tutorial - classification and taxonomy
DNA k-mers underlie much of our assembly work, and we (along with many others!) have spent a lot of time thinking about how to store k-mer graphs efficiently,&nb...997 days ago
oGNM:Conformational dynamics based on contact topology in a coarse-grained presentation
Gaussian Network Model (GNM) is a powerful tool to sample conformational dynamics ba...tallography, a protein in homo-/hetero-dimers, a part of a protein complex, the DNA in complexed with transcripti...853 days ago
odgi: optimized dynamic genome/graph implementation
odgi provides an efficient and succinct dynamic DNA sequence graph model, as well as a host of algorithms that allow the use of such graphs in bioinformatic analyses. Careful encoding of...837 days ago