Jit
Enthusiast computational biologist with business dream !!!
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Single Cell RNAseq data analysis tutorial !!
Last updated 2553 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,...EGAD: Ultra-fast functional analysis of gene networks
By Rahul Nayak 2172 days agogithub.com - With the EGAD (Extending ‘Guilt-by-Association’ by Degree) package, we present a series of highly efficient tools to calculate functional properties in networks based on the guilt-by-association principle. These allow rapid controlled...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...RNA-seq workflow: gene-level exploratory analysis and differential expression
By Jit 1142 days agomaster.bioconductor.org - Here we walk through an end-to-end gene-level RNA-seq differential expression workflow using Bioconductor packages. We will start from the FASTQ files, show how these were quantified to the reference transcripts, and prepare gene-level count...Tools for Differential expression analysis
By Abhi 747 days ago Comments (1)the sequenced reads can be mapped to the organism’s genes to assess how differently the genes are expressed under the experimental circumstances as opposed to the control scenario. This is known as differential expression (DE) analysisBactopia: a flexible pipeline for complete analysis of bacterial genomes
By Abhi 168 days agobactopia.github.io - Bactopia is a flexible pipeline for complete analysis of bacterial genomes. The goal of Bactopia is process your data with a broad set of tools, so that you can get to the fun part of analyses quicker! Bactopia was inspired by Staphopia, a...SuRankCo: supervised ranking of contigs in de novo assemblies
By Neel 2741 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...ARC: pipeline which facilitates iterative, reference guided de novo assemblies
By Jit 2312 days agoibest.github.io - ARC is a pipeline which facilitates iterative, reference guided de novo assemblies with the intent of: Reducing time in analysis and increasing accuracy of results by only considering those reads which should assemble...Orthoflow: workflow for phylogenetic inference of genome-scale datasets of protein-coding genes
By LEGE 277 days agogithub.com - Orthoflow is a workflow for phylogenetic inference of genome-scale datasets of protein-coding genes. Our goal was to make it straightforward to work from a combination of input sources including annotated contigs in Genbank format and FASTA files...Tigers genome sequenced
By Rahul Agarwal 4085 days agoOnly 4.4 percent DNA difference between Tiger and house cats
