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HistoneDB 2.0 – with variants
By Anjana 3788 days agowww.ncbi.nlm.nih.gov - This histone database can be used to explore the diversity of histone proteins and their sequence variants in many organisms. The resource was established to better understand how sequence variation may affect functional and structural features of...
BBMap/BBTools package: Multipurpose tool designed for converting reads or other nucleotide data...
Last updated 3609 days ago by JitReformat is a member of the BBMap/BBTools package. It is a multipurpose tool designed for converting reads or other nucleotide data between different formats. It supports, and can inter-convert: fastq fasta fasta+qual sam scarf (an old Illumina...Blobsplorer
By Jit 3777 days agonematodes.org - Blobsplorer is a tool for interactive visualization of assembled DNA sequence data ("contigs") derived from (often unintentionally) mixed-species pools. It allows the simultaneous display of GC content, coverage, and taxonomic annotation for...CNIDARIA: fast, reference-free phylogenomic clustering
By Shruti Paniwala 3774 days agogithub.com - Motivation: Identification of biological specimens is a major requirement for a range of applications. Reference-free methods analyse unprocessed sequencing data without relying on prior knowledge, but these do not scale to arbitrarily large genomes...DarkHorse
By Jit 3769 days agodarkhorse.ucsd.edu - DarkHorse is a bioinformatic method for rapid, automated identification and ranking of phylogenetically atypical proteins on a genome-wide basis. It works by selecting potential ortholog matches from a reference database of amino acid...-
Cheatsheet for Linux !!
Last updated 3769 days ago by JitLinux Commands Cheat Sheet File System ls — list items in current directory ls -l — list items in current directory and show in long format to see perimissions, size, an modification... SAM flags
By Poonam Mahapatra 3761 days ago Comments (4)broadinstitute.github.io - Decoding SAM flags This utility makes it easy to identify what are the properties of a read based on its SAM flag value, or conversely, to find what the SAM Flag value would be for a given combination of properties. To decode a given SAM flag...CSBB-v1.0
By Neel 3762 days agogithub.com - CSBB is a command line based bioinformatics suite to analyze biological data acquired through varied avenues of biological experiments. CSBB is implemented in Perl, while it also leverages the use of R and python in background for specific modules....BINC exam preparation tips !!
By Jit 3745 days agoThese are just a scant few of the common questions asked by bioinformatics students as they ready themselves for the next exam sittingFind predicted CRISPR sites using Ensembl
By Jit 3734 days agoCas9 restricts DNA at specific Protospacer Adjacent Motifs (PAMs), which is species-dependent (for example, 5′ NGG 3′ for Streptococcus pyogenes Cas9).
