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Termal: a fast and interactive terminal-based viewer for multiple sequence alignments
By LEGE 167 days agogithub.com - termal, a fast, interactive, terminal-based viewer for multiple sequence alignments (MSAs), designed for use on remote systems such as high-performance computing (HPC)...Tetra-Nucleotide Analysis
By Jit 3231 days agochunlab.wordpress.com - A tetra-nucleotide is a fragment of DNA sequence with 4 bases (e.g. AGTC or TTGG). Pride et al. (2003) showed that the frequency of tetra-nucleotides in bacterial genomes contain useful, albeit weak, phylogenetic signals. Even though...Snippy: Rapid haploid variant calling and core SNP phylogeny
By Neel 2767 days agogithub.com - Snippy finds SNPs between a haploid reference genome and your NGS sequence reads. It will find both substitutions (snps) and insertions/deletions (indels). It will use as many CPUs as you can give it on a single computer (tested to 64 cores). It is...List of popular bioinformatics software/tools
By Jitendra Narayan 4619 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 4139 days agoUser-friendly tools for the normalization and visualization of deep-sequencing dataComputer simulation of genetic mechanism !!
By Jit 3648 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 2884 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 3540 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 3364 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...Software and Tools to detect structure variation with long reads !!
By Archana Malhotra 3281 days agoStructural variation caller tools using long reads
