Rahul Nayak
A Bioinformatician
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HISAT2: a fast and sensitive alignment program for mapping next-generation sequencing reads
By Rahul Nayak 2958 days agogithub.com - HISAT2 is a fast and sensitive alignment program for mapping next-generation sequencing reads (both DNA and RNA) to a population of human genomes (as well as to a single reference genome). Based on an extension of BWT for...DNA Nucleotide Counter
By Neel 2801 days agowww.dnabaser.com - DNA Nucleotide Counter is delivered in a DNA Baser package together with other free molecular biology tools. Download the package and double click it. The programs inside the package will be extracted to the destination folder (specified...Troyanskaya Lab
The goal of our research is to interpret and distill this complexity through accurate analysis and modeling of molecular pathways, particularly those in which malfunctions lead to the manifestation of disease. We are inventing integrative methods...
Frequent parameters for bioinformatics tools !
Last updated 2055 days ago by BioStarThird party executable parameters and...Kmer: a suite of tools for DNA sequence analysis
By BioStar 1761 days agohelp.rc.ufl.edu - More at https://help.rc.ufl.edu/doc/Kmer This also includes: A2Amapper: ATAC, Assembly to Assembly Comparision tool: Comparative mapping between two genome assemblies (same species), or between two different genomes (cross...-
Libraries or management tools for high throughput sequencing data
Last updated 618 days ago by LEGEGATB Library. The Genome Analysis Toolbox with de-Bruijn graph. A large part of tools developed by the GenScale team are based on this library.These methods enable the analysis of data sets of any size on multi-core desktop... SuRankCo: supervised ranking of contigs in de novo assemblies
By Neel 3307 days agosourceforge.net - SuRankCo is a machine learning based software to score and rank contigs from de novo assemblies of next generation sequencing data. It trains with alignments of contigs with known reference genomes and predicts scores and ranking for contigs which...Rebaler: program for conducting reference-based assemblies using long reads.
By Jit 2825 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...Minipolish: A tool for Racon polishing of miniasm assemblies
By BioStar 2385 days agogithub.com - Miniasm is a great long-read assembly tool: straight-forward, effective and very fast. However, it does not include a polishing step, so its assemblies have a high error rate – they are essentially made of stitched-together pieces of long...Syri compares alignments between two chromosome-level assemblies and identifies synteny and...
By Shruti Paniwala 1474 days agogithub.com - Syri compares alignments between two chromosome-level assemblies and identifies synteny and structural rearrangements.
