Rahul Nayak
A Bioinformatician
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Dahak: benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.
By BioStar 2369 days agogithub.com - Dahak is a software suite that integrates state-of-the-art open source tools for metagenomic analyses. Tools in the dahak software suite will perform various steps in metagenomic analysis workflows including data pre-processing, metagenome assembly,...postdoctoral fellow for a large-scale microbial comparative genomics !
Asaf Levy hiring a postdoctoral fellow for a large-scale microbial comparative genomics project at the Hebrew University of Jerusalem (Israel). The project is a continuation of Levy Asaf et al. Nature Genetics 2018 paper. Requirements:...Understanding Fastqc Output
By Jit 3824 days agowww.bioinformatics.babraham.ac.uk - Understanding Following table and graphs Duplication level kmer profile per base GC content per base N content per base quality per base sequence content per sequence GC content per sequence quality sequence length distribution More at...AfterQC: Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
By Jit 3019 days ago Comments (1)github.com - Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data AfterQC can simply go through all fastq files in a folder and then output three folders: good, bad and QC folders, which contains good reads, bad reads and the QC...eQuant : energy-based quality assessment of protein
By Shruti Paniwala 3389 days agobiosciences.hs-mittweida.de - Protein structures are of varying quality. Especially, in-silico modeled structures are prone to contain serious errors, which limit the usefulness and reliability of these particular protein structures.eQuant is a service for structure...Referee: Genome assembly quality scores
By Jit 2891 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...Filtlong: quality filtering tool for long reads
By Radha Agarkar 2335 days agogithub.com - Filtlong is a tool for filtering long reads by quality. It can take a set of long reads and produce a smaller, better subset. It uses both read length (longer is better) and read identity (higher is better) when choosing which reads pass the...
Single Cell RNAseq data analysis tutorial !!
Last updated 3233 days ago by Robert M WilliomsA major breakthrough (replaced microarrays) in the late 00’s and has been widely used since Measures the average expression level for each gene across a large population of input cells Useful for comparative transcriptomics,...Flye: Fast and accurate de novo assembler for single molecule sequencing reads
By BioJoker 2742 days agogithub.com - Flye is a de novo assembler for single molecule sequencing reads, such as those produced by PacBio and Oxford Nanopore Technologies. It is designed for a wide range of datasets, from small bacterial projects to large mammalian-scale assemblies. The...VCFtools: perform common tasks with VCF files such as file validation, file merging, intersecting,...
By Rahul Nayak 2980 days agovcftools.sourceforge.net - VCFtools contains a Perl API (Vcf.pm) and a number of Perl scripts that can be used to perform common tasks with VCF files such as file validation, file merging, intersecting, complements, etc. The Perl tools support all versions of the VCF...
