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rasqual

Robust Allele Specific Quantification and quality controL

rbigdata.github.io

rbootcamp2015

Materials for the Hunter / CUNY School of Public Health R Bootcamp 2015

rclinicaltrials

An interface to the clinicaltrials.gov API

rcorrector

Error correction for Illumina RNA-seq reads

rcourse

rdnatools

Analysis tools for rDNA seqencing using PacBio

rdotnet

.NET interop library to call the R statistical language in the same process

reactomefi

:fire: Reactome Function Interaction Annotation version 2014-2015

readingpapers

A guide to reading scientific papers

readmzxmldata

Reads mass spectrometry data in mzXML format

redotable

A dotplot application for DNA/RNA sequence

region_analysis

A python script used to annotate genomic intervals.

rembrandts

REMoving Bias from Rna-seq ANalysis of Differential Transcript Stability

repaq

repack Illumina format FASTQ to a smaller binary file (.rfq), which can be further compressed by xz (.rfq.xz)

reparation

reproducibility_workshop

Materials for the Computational Reproducibility workshop

reproducible-research

Resources for reproducible research.

resprog

Program directory RESPONSIFY

revolver

REVOLVER - Repeated Evolution in Cancer

rforproteomics

Package accompanying the 'R for Proteomics' publication

rgraphicsdevice

rgreat

Client for GREAT Analysis

ribbon

A genome browser that shows long reads and complex variants better

rmd-runs

The RMD_RUNS function will log10 transform peptide peak intensity, that is, peptide abundance data and determine if any LC-MS analyses (ie,runs) in a N x P peptide data set are statistical outliers. The statistical analysis is based on summarizing each LC-MS run as a vector of q=5 summary statistics which describe the peptide abundance distribution for a specific run; a N x q matrix is then analyzed using robust PCA to compute a robust estimate of the covariance matrix used in a the calculation of a robut Mahalanobis distance.

rna-seq

New user

rna-seq-analysis

RNAseq analysis notes from Ming Tang

rna-seq-analysis-1

Codes that I use for day-to-day work in lab.

rna-seq-diff-exprn

RNA-Sequencing data differential expression analysis pipeline. Performs: genome coverage (via bedtools and HTSeq), generates Circos code and plots, differential expression (via DESeq and NOISeq), structural variant detection (e.g. fusion genes, via SVDetect) and differential exon usage (via DEXSeq).

rna-seq-tutorial-for-gene-differential-expression-analysis

This tutorial is created for educational purpose