Poonam Mahapatra
Bioinformatics Researcher
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Sequencing By Xpansion
By Jitendra Narayan 3445 days agoXpandomer in a single drop reaction to sequence an entire human genome 1000X over.methylKit
By Jit 3093 days agogithub.com - methylKit is an R package for DNA methylation analysis and annotation from high-throughput bisulfite sequencing. The package is designed to deal with sequencing data from RRBS and its variants, but also target-capture methods such as Agilent...Kaiju
By Jit 3069 days agohttp://kaiju.binf.ku.dk/ - Kaiju is a program for the taxonomic classification of metagenomic high-throughput sequencing reads. Each read is directly assigned to a taxon within the NCBI taxonomy by comparing it to a reference database containing microbial and viral protein...Software and Tools to detect structure variation with long reads !!
By Archana Malhotra 2808 days agoStructural variation caller tools using long readsFOGSAA: Fast Optimal Global Sequence Alignment Algorithm
By Jit 2540 days agowww.isical.ac.in - Sequence alignment algorithms are widely used to infer similarirty and the point of differences between pair of sequences. FOGSAA is a fast Global alignment algorithm. It is basically a branch and bound approach which starts branch expansion in a...Consed--A Finishing Package (BAM File Viewer, Assembly Editor, Autofinish, Autoreport, Autoedit,...
By Neel 1749 days agowww.phrap.org - Supports Illumina, 454, other Next-Gen and Sanger Reads and allows mixtures of these read types Consed includes BamScape which can view bam files with unlimited numbers of reads. BamScape can bring up consed to edit reads and the reference sequence...DnaSP: DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms
By Neel 1457 days agohttp://www.ub.edu/dnasp/ - DnaSP, DNA Sequence Polymorphism, is a software package for the analysis of DNA polymorphisms using data from a single locus (a multiple sequence aligned -MSA data), or from several loci (a Multiple-MSA data, such as formats generated by some...ULTRA (ULTRA Locates Tandemly Repetitive Areas) : Effective Labeling of Repetitive Genomic Sequence
By Abhi 166 days agogithub.com - ULTRA is a tool to find and annotate tandem repeats inside genomic sequence. It is able to find repeats of any length and of any period (up to a maximum period of 4000). It can find highly decayed repeats missed by other software, and it will also...CrocoBLAST: Optimized parallel implementation of local sequence alignment algorithms
By Jit 2676 days agowebchem.ncbr.muni.cz - Local sequence alignment is a cornerstone of bioinformatics, allowing to compare the amino-acid sequences of different proteins, or the nucleotide sequences of different pieces of DNA. The Basic Local Alignment Search Tool (BLAST) has revolutionized...Scripts for the analysis of HGT in genome sequence data.
By Jit 2549 days agogithub.com - Scripts for the analysis of HGT in genome sequence data
