1422 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...1260 days ago
Applied Computational Genomics Course at UU: Spring 2020
...ll be structured as a series of lectures covering key concepts and analytical strategies. A diverse range of biological questions enabled by modern DNA sequencing technologies will...1232 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 genom...1104 days ago
Calling variants in non-diploid systems
...n all NGS platforms) and true low frequency variants. Some of the early attempts to do this well have been accomplished on human mitochondrial DNA although the same approa...1047 days ago
Kmer: a suite of tools for DNA sequence analysis
...e mapping between two genome assemblies (same species), or between two different genomes (cross species). Sim4db: Spliced alignment of cDNA and genomic sequences, from t...994 days ago
994 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...986 days ago
oGNM:Conformational dynamics based on contact topology in a coarse-grained presentation
...e can be crystal contacts defined in structures solved by x-ray crystallography, a protein in homo-/hetero-dimers, a part of a protein complex, the DNA in complexed with transcripti...842 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...826 days ago