Jit
Enthusiast computational biologist with business dream !!!
Our Sponsors
Related items
minimap2: A versatile pairwise aligner for genomic and spliced nucleotide sequences
By Jit 2907 days agogithub.com - git clone https://github.com/lh3/minimap2 cd minimap2 && make # long sequences against a reference genome ./minimap2 -a test/MT-human.fa test/MT-orang.fa > test.sam # create an index first and then map ./minimap2 -d MT-human.mmi...SEX-DETector: A Probabilistic Approach to Study Sex Chromosomes in Non-Model Organisms
By Surabhi Chaudhary 2928 days agolbbe.univ-lyon1.fr - SEX-DETector is a probabilistic method that relies on RNAseq data from a cross (parents and progeny of each sex) to infer autosomal and sex-linked genes (genes located on the non recombining part of sex chromosomes). How does SEX-DETector...ContigExtender: a new approach to improving de novo sequence assembly for viral metagenomics data
By LEGE 758 days agogithub.com - ContigExtender, was developed to extend contigs, complementing de novo assembly. ContigExtender employs a novel recursive Overlap Layout Candidates (r-OLC) strategy that explores multiple extending paths to achieve longer and highly accurate...KAST: Perform Alignment-free k-tuple frequency comparisons from sequences
By Jit 2815 days agogithub.com - Perform Alignment-free k-tuple frequency comparisons from sequences. This can be in the form of two input files (e.g. a reference and a query) or a single file for pairwise comparisons to be made.
Bioinformatics tools to detect horizontal gene transfer (HGT) in genomes
Last updated 1611 days ago by AbhiHorizontal gene transfer (HGT), the “non-sexual movement of genetic material between two organisms” , is relatively common in prokaryotes and single-celled eukaryotes, but a number of factors combine to make it far rarer in...MAJIQ 2 is released !
By LEGE 2158 days agomajiq.biociphers.org - Ability to detect, quantify, and visualize complex and de-novo splicing variations from RNASeq. MAJIQ’s accuracy compares favorably to other algorithms. MAJIQ 2 is *way* faster, more memory and I/O efficient New visualization (VOILA...lordFAST: sensitive and Fast Alignment Search Tool for LOng noisy Read sequencing Data
By BioJoker 2747 days agogithub.com - lordFAST is a sensitive tool for mapping long reads with high error rates. lordFAST is specially designed for aligning reads from PacBio sequencing technology but provides the user the ability to change alignment parameters depending on the reads...PLAST: A fast, accurate and NGS scalable bank-to-bank sequence similarity search tool
By Jit 3108 days agohttps://plast.inria.fr/ - PLAST is a fast, accurate and NGS scalable bank-to-bank sequence similarity search tool providing significant accelerations of seeds-based heuristic comparison methods, such as the Blast suite of algorithms. Relying on unique software architecture,...MMseqs2.0: ultra fast and sensitive protein search and clustering suite
By Jit 2997 days agogithub.com - MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The...WhatsHap: fast and accurate read-based phasing
By Jit 2930 days agowhatshap.readthedocs.io - WhatsHap is a software for phasing genomic variants using DNA sequencing reads, also called read-based phasing or haplotype assembly. It is especially suitable for long reads, but works also well with short reads. Features Very accurate...
