Hbctraining.github.io

Set up and overview for gene-level differential expression …

We will be using the Salmon abundance estimates from the RNA-Seq dataset that is part of a larger study described in Kenny PJ et al, Cell Rep 2014. The RNA-Seq was performed on HEK293F cells that were either transfected with a MOV10 transgene, or siRNA … See more

Actived: 8 days ago

URL: https://hbctraining.github.io/DGE_workshop_salmon/lessons/01_DGE_setup_and_overview.html

Introduction to R Training-modules

WEBDescription. This repository has teaching materials for a 2-3 hour, hands-on Introduction to R workshop led at a quick pace. The workshop will give participants an overview of the …

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Quantification of transcript abundance using Salmon

WEBThe first two columns are self-explanatory, the name of the transcript and the length of the transcript in base pairs (bp).; The effective length represents the various factors that …

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Introduction to RNA-seq using High-Performance Computing …

WEBLearning objectives Learn what a “shell” is and become comfortable with the command line interface • Find your way around a UNIX filesystem • Work with small and large data files …

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Introduction to RNA-Seq using high-performance …

WEBNow, we could create the index using the salmon index command as detailed below; however, we are not going to run this in class as it can take a few minutes to run. The …

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Quantification of transcript abundance using Salmon

WEBNOTE: Mapping validation can generally improve both the sensitivity and specificity of mapping, with only a moderate increase in use of computational resources. Unless there …

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Introduction to Single-cell RNA-seq

WEBIn single-cell RNA sequencing experiments, doublets are generated from two cells. They typically arise due to errors in cell sorting or capture, especially in droplet-based …

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