2526 days ago
miniasm: very fast OLC-based de novo assembler for noisy long reads
Miniasm is a very fast OLC-based de novo assembler for noisy long reads. It takes all-vs-all read self-mappings (typically by minimap) as input and out...2395 days ago
MinION_GC: An R script to do some QC on MinION data
...on a single, small, .txt summary file. So it's a lot quicker than most other things out there: it takes about a minute to analyse a 4GB flowcell on my laptop. https://github.com/r...2388 days ago
MetaSim A Sequencing Simulator for Genomics and Metagenomics.
...omes, the program allows the user to design a metagenome by specifying the number of genomes present at different levels of the NCBI taxonomy, and then to collect reads fr...2388 days ago
2381 days ago
Building Web UIs With Mojolicious Perl
Mojolicious is one of 3 leading web frameworks available in the perl ecosystem (along with Dancer and Catalyst) and by far my favorite. Mojolicious aims to provide a complete web d...2365 days ago
ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
...(iii) calculating distances between trees of different size or including duplications, and (iv) providing seamless integration with the NCBI taxonomy database. ETE is freely ava...2311 days ago
An Introduction to Applied Bioinformatics
...so) in the Caporaso Lab at Northern Arizona University. You can find information on the courses I teach on my teaching website and information on my research and lab on my l...2300 days ago
alienness : Rapid Detection of Candidate Horizontal Gene Transfers across the Tree of Life
...heritance. While it is prevalent in prokaryotes, HGT is less frequent in eukaryotes and particularly in Metazoa. Here, we propose Alienness, a taxonomy-aware web application availab...2290 days ago
2210 days ago