Jit
Enthusiast computational biologist with business dream !!!
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SViper: Swipe your Structural Variants called on long (ONT/PacBio) reads with short exact...
By Neel 2477 days agogithub.com - Call sviper ~$ ./sviper -s short-reads.bam -l long-reads.bam -r ref.fa -c variants.vcf -o polished_variants This will output a polished_variants.vcf file, that contains all the refined variants. Sometimes it is helpful to look at the...MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads
By Abhi 1124 days agogithub.com - MitoHiFi v3.2 is a python pipeline distributed under MIT License ! MitoHiFi was first developed to assemble the mitogenomes for a wide range of species in the Darwin Tree of Life Project...Rebaler: program for conducting reference-based assemblies using long reads.
By Jit 2937 days agogithub.com - Rebaler is a program for conducting reference-based assemblies using long reads. It relies mainly on minimap2 for alignment and Racon for making consensus sequences. I made Rebaler for bacterial genomes (specifically for the...LAST
By Archana Malhotra 3860 days agohttp://last.cbrc.jp/ - LAST can: Handle big sequence data, e.g: Compare two vertebrate genomes Align billions of DNA reads to a genome Indicate the reliability of each aligned column. Use sequence quality data properly. Compare DNA to proteins, with...Consed--A Finishing Package (BAM File Viewer, Assembly Editor, Autofinish, Autoreport, Autoedit,...
By Neel 2430 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...HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution
By Jit 3160 days agogithub.com - Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution" Preprint: http://biorxiv.org/content/early/2016/08/01/062117 Paper: http://genome.cshlp.org/content/27/5/747.full An ipython notebook to...LRSDAY: Long-read Sequencing Data Analysis for Yeasts
By Poonam Mahapatra 2595 days agogithub.com - Long-read sequencing technologies have become increasingly popular in genome projects due to their strengths in resolving complex genomic regions. As a leading model organism with small genome size and great biotechnological importance, the budding...KEGG Mapper – Reconstruct Pathway
By Abhimanyu Singh 2852 days agowww.kegg.jp - Reconstruct Pathway is a KEGG PATHWAY mapping tool that assists genome and metagenome annotations. The input data is a single gene list (for a single organism) or multiple gene lists (for multiple organisms) annotated with KEGG Orthology (KO)...Now time is come to revolutionize amino acid sequencing by Nanopore technology
By Rahul Agarwal 4562 days agowww.eurekalert.org - Amino acid sequencing by Nanopore recognition tunneling method1mb long DNA with Nanopore technology
By Jit 3210 days agoLongest read of 1mb achievements with Nanopore
