Jitendra Narayan
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AlignQC: A tool for assessing an alignment, and generating reports that are easy to share
By Jit 2347 days agowww.healthcare.uiowa.edu - Long read alignment analysis. Generate a reports on sequence alignments for mappability vs read sizes, error patterns, annotations and rarefraction curve analysis. The most basic analysis only requires a BAM file, and outputs a web browser...rHAT: a seed-and-extension-based noisy long read alignment tool
By Abhimanyu Singh 2300 days agogithub.com - rHAT is a seed-and-extension-based noisy long read alignment tool. It is suitable for aligning 3rd generation sequencing reads which are in large read length with relatively high error rate, especially Pacbio's Single Molecule Read-time (SMRT)...Caretta – A multiple protein structure alignment and feature extraction suite
By Rahul Nayak 1483 days agowww.bioinformatics.nl - Caretta – a multiple protein structure alignment and feature extraction suite Caretta, a multiple structure alignment suite meant for homologous but sequentially divergent protein families which consistently returns accurate alignments...Demo 4: Using BLAST/BLAT in Ensembl
By Radha Agarkar 4139 days agoWe demonstrate the BLAST/BLAT tool in Ensembl. Search for a sequence in Ensembl, and identify hits to the genome, or to genes, with this tool.Genome Workbench 2.10.7
By Gudiya Pal 3114 days agoGenome Workbench 2.10.7 is here! New features include added support for local custom BLAST databases and improvements to Tree View.
Converting BLAST output into CSV
Last updated 2586 days ago by Poonam MahapatraSuppose we wanted to do something with all this BLAST output. Generally, that’s the case - you want to retrieve all matches, or do a reciprocal BLAST, or something. As with most programs that run on UNIX, the text output is in some specific...BLAST+ 2.11.0 release is now available on FTP site !
By Jit 1517 days agoThe main advance is the ability to provide usage reports to NCBI to help us improve BLAST.TwinBLAST: When Two Is Better than One
By Jit 1951 days agogithub.com - TwinBLAST is a web-based tool for viewing 2 BLAST reports simultaneouslyside-by-side. It uses ExtJS (www.sencha.com/products/extjs/) to provide 2independently scrollable panels. BioPerl (www.bioperl.org) is used to indexraw BLAST reports and...SOWDHAMINI Lab
Genome sequencing projects have enormous potential for benefiting human endeavors. However, just as acquiring a language's vocabulary does not enable one to speak it, databases that list the amino acid composition of proteins do not directly tell us...BLAST+ 5: Key Updates and Enhancements for Modern Bioinformatics
By LEGE 33 days agoThe BLAST+ 5 (Basic Local Alignment Search Tool) update has introduced several key enhancements aimed at improving performance, user experience, and compatibility with evolving genomic data standards. Here are the major updates:
