Abhimanyu Singh
A bioinformatics beginner
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SSPACE
By Jit 2789 days agowww.baseclear.com - SSPACE standard is a stand-alone program for scaffolding pre-assembled contigs using NGS paired-read data. It is unique in offering the possibility to manually control the scaffolding process. By using the distance information of paired-end and/or...Finishing !!
By Jit 2774 days agowww.cbcb.umd.edu - The process of finishing a genome and moving it from a draft stage (the result of sequencing and initial assembly) to a complete genome is typically a time and resource intensive task. The advent of new sequencing technologies...DIYA: a bacterial annotation pipeline for any genomics lab
By Jit 2733 days agosourceforge.net - DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and...MeDuSa: a multi-draft based scaffolder
By Abhimanyu Singh 2504 days agogithub.com - MeDuSa (Multi-Draft based Scaffolder), an algorithm for genome scaffolding. MeDuSa exploits information obtained from a set of (draft or closed) genomes from related organisms to determine the correct order and orientation of the contigs. MeDuSa...Porechop: tool for finding and removing adapters from Oxford Nanopore reads
By Rahul Nayak 2400 days agogithub.com - Porechop is a tool for finding and removing adapters from Oxford Nanopore reads. Adapters on the ends of reads are trimmed off, and when a read has an adapter in its middle, it is treated as chimeric and chopped into separate reads. Porechop...Installing Salmon for Trinity !
By Rahul Nayak 2365 days ago Comments (1)Installing Trinity dependencies !nanofilt: Filtering and trimming of long read sequencing data
By Jit 2338 days ago Comments (1)github.com - Filtering on quality and/or read length, and optional trimming after passing filters.Reads from stdin, writes to stdout. Intended to be used: directly after fastq extraction prior to mapping in a stream between extraction and...Phased Human Genome Assembly !
By Rahul Nayak 2268 days agoDiploid Assembly of a Puerto Rican Female Adds a Rich Resource to Population-Specific Reference GenomesGenobuntu: A software package containing more than 70 software and packages oriented towards NGS...
By BioStar 2204 days agosourceforge.net - Genobuntu is a software package containing more than 70 software and packages oriented towards NGS. In its current version, Genobuntu supports pre assembly tools, genome assemblers as well as post assembly tools. Commonly used biological...Introduction to Bioinformatics
By eliabrodsky 2028 days agoLearn about bioinformatics online by watching videos, reading engaging articles and practicing bioinformatics skills using public domain datasets.
