Jit
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FLAS: fast and high throughput algorithm for PacBio long read self-correction.
By Jit 1980 days agogithub.com - FLAS, a wrapper algorithm of MECAT, to achieve high throughput long read self-correction while keeping MECAT's fast speed. FLAS finds additional alignments from MECAT prealigned long reads to improve the correction throughput, and removes...SeQuiLa-cov: A fast and scalable library for depth of coverage calculations
By Jit 1804 days agoacademic.oup.com - The Docker image is available at https://hub.docker.com/r/biodatageeks/. Supplementary information on benchmarking procedure as well as test data are publicly accessible at the project documentation...MMseqs2: ultra fast and sensitive sequence search and clustering suite
By Manisha Mishra 1404 days agogithub.com - MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin)...HELIANO: A fast and accurate tool for detection of Helitron-like elements
By LEGE 101 days agogithub.com - Helitron-like elements (HLE1 and HLE2) are DNA transposons. They have been found in diverse species and seem to play significant roles in the evolution of host genomes. Although known for over twenty years, Helitron sequences are still challenging...TAREAN: A computational tool for identification and characterization of satellite DNA from...
By Surabhi Chaudhary 2383 days agobitbucket.org - TAndem REpeat ANalyzer -TAREAN – is a computational pipeline for unsupervised identification of satellite repeats from unassembled sequence reads. The pipeline uses low-pass whole genome sequence reads and performs their...PaReBrick: PArallel REarrangements and BReaks identification toolkit
By Jit 1141 days agogithub.com - PaReBrick. The tool takes a collection of strains represented as a sequence of oriented synteny blocks and a phylogenetic tree as input data. It identifies rearrangements, tests them for consistency with a tree, and sorts the events by their...SISRS: Site Identification from Short Read Sequences
By Abhimanyu Singh 2186 days agogithub.com - Next-gen sequence data such as Illumina HiSeq reads. Data must be sorted into folders by taxon (e.g. species or genus). Paired reads in fastq format must be specified by _R1 and _R2 in the (otherwise identical) filenames. Paired and unpaired reads...Fourth Branch of Life
By Jitendra Narayan 4091 days agoNewly Found Pandoraviruses Hint at a Fourth Branch of LifeNCBI to assist in Virus Hunting Data Science Hackathon
By BioStar 2199 days agoNCBI Hackathon are pleased to announce the second installment of the SoCal Bioinformatics Hackathon. From January 9-11, 2019, the NCBI will help run a bioinformatics hackathon in Southern California hosted by the Computational Sciences Research...
