Neel
Bioinformatics Beginner
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List of popular bioinformatics software/tools
By Jitendra Narayan 4803 days ago Comments (28)samtools.sourceforge.net - In current genome era, our day to day work is to handle the huge geneome sequences, expression data, several other datasets. This link provide a comprehensive list of commonly used sofware/tools.deepTools
By Martin Jones 4323 days agoUser-friendly tools for the normalization and visualization of deep-sequencing dataComputer simulation of genetic mechanism !!
By Jit 3832 days ago Comments (2)Computer simulation is the discipline of designing a model of an actual or theoretical physical/biological system, executing the model on a digital computer, and analyzing the execution output.
Tools for Searching Repeats And Palindromic Sequences
Last updated 3068 days ago by Poonam Mahapatra Comments (2)What are genomic interspersed repeats? In the mid 1960's scientists discovered that many genomes contain stretches of highly repetitive DNA sequences ( see Reassociation Kinetics Experiments, and C-Value Paradox ). These sequences were later...CSBB-v1.0
By Neel 3724 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....Finding Patterns in Biological Sequences
By Jit 3548 days agoengr.case.edu - In this report we provide an overview of known techniques for discovery of patterns of biological sequences (DNA and proteins). We also provide biological motivation, and methods of biological verification of such patterns. Finally we list publicly...TMAP - torrent mapping alignment program General Notes
By Poonam Mahapatra 3447 days agogithub.com - TMAP - torrent mapping alignment program General Notes TMAP is a fast and accurate alignment software for short and long nucleotide sequences produced by next-generation sequencing technologies. The latest TMAP is unsupported. To use a...d3Network:Tools for creating D3 JavaScript network, tree, dendrogram, and Sankey graphs from R.
By Jit 3078 days agochristophergandrud.github.io - Mike Bostock’s D3.js is great for creating interactive network graphs with JavaScript. The d3Network package makes it easy to create these network graphs from R. The main idea is that you should able to take...-
Ligand Docking Tools and Software !
Last updated 3059 days ago by Poonam MahapatraLigand docking referred to cases where small molecule (“ligand”) is being docked into much larger macromolecule ("target"). The following is partial list of docking software, focusing on free (at least for academic institutes) and/or... Scallop: reference-based transcriptome assembler for RNA-seq
By Rahul Nayak 3046 days agogithub.com - Scallop is an accurate reference-based transcript assembler. Scallop features its high accuracy in assembling multi-exon transcripts as well as lowly expressed transcripts. Scallop achieves this improvement through a novel algorithm that can be...
