Rahul Nayak
A Bioinformatician
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Project Associate-I | Project Associate-II | Senior Project Associate @ IGIB
Experience in Next Generation Sequencing (NGS) application and interest in Genomics/ Clinical / Translational Applications. OR Good computational programming skills and deep interest in working on interface of Genomics and Clinical application....The "Ifs" and "Buts" of NGS Quality Control and Trimming
By BioStar 118 days agoNGS quality control and trimming are essential steps to ensure reliable and accurate data for analysis. While the "ifs" highlight the clear benefits of these steps, the "buts" remind us of the potential pitfalls. By adopting best practices and...
My commonly used commands in Bioinformatics
Last updated 2471 days ago by Rahul NayakFYI, I've found it useful to use MUMmer to extract the specific changes that Racon makes, so I can evaluate them individually: minimap -t 24 assembly.fasta long_reads.fastq.gz | racon -t 24 long_reads.fastq.gz - assembly.fasta...Referee: Genome assembly quality scores
By Jit 2369 days agogwct.github.io - Modern genome sequencing technologies provide a succint measure of quality at each position in every read, however all of this information is lost in the assembly process. Referee summarizes the quality information from the reads that map to a site...jackalope: A swift, versatile phylogenomic and high-throughput sequencing simulator
By Abhimanyu Singh 2106 days agogithub.com - jackalope simply and efficiently simulates (i) variants from reference genomes and (ii) reads from both Illumina and Pacific Biosciences (PacBio) platforms. It can either read reference genomes from FASTA files or simulate new ones. Genomic variants...Kevler: Reference-free variant discovery in large eukaryotic genomes
By Jit 1920 days agogithub.com - Welcome to kevlar, software for predicting de novo genetic variants without mapping reads to a reference genome! kevlar's k-mer abundance based method calls single nucleotide variants (SNVs), multinucleotide variants (MNVs),...-
Creating conda environment for python2.7
Last updated 2551 days ago by JitTIP: By default, environments are installed into the envs directory in your conda directory. Run conda create --help for information on specifying a different path. Use the Terminal or an Anaconda Prompt for the... Does anyone have Nanopore latest updates?
Started by Poonam Mahapatra 4280 days ago Replies (34) Last reply by Priya Singh 2913 days agoThere was a lot of buzz about Oxford Nanopore Technologies® is developing the GridION™ system and miniaturised MinION™ device. These are a new generation of electronic molecular analysis system for use in scientific research,...The genome factory !!!
By Madhvan Reddy 4123 days agoWorld’s first $1,000 genome enables ‘factory’ scale sequencing for population and disease studies
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