friedue

course_RNA-seq2019

Notes

Personal notes about work- and coding-related topics

course_RNA-seq2017

course_RNA-seq2018

Scott2019

Collection of scripts used for the analysis of high-throughput sequencing data (RNA-seq, ATAC-seq, ChIP-seq) for Scott et al., 2019.

spaeti

Functions for spatial transcriptomics (Visium)

Cancer_Epitopes_CSHL

A pipeline to approximate the immunogenicity of peptides resulting from cancer mutations based on structure and other factors.

celllabels

collection of cell labels from published single-cell omics data sets

CellTypeMIMB

christmas

toy example for R packages

DepLabData

clean some datasets

DittoSeq

Color blindness friendly visualization of single-cell and bulk RNA-sequencing data

djvdj

An R package to analyze AVID-seq data

DropletUtils

Clone of the Bioconductor repository for the DropletUtils package, see https://bioconductor.org/packages/devel/bioc/html/DropletUtils.html for the official development version.

DRUID

A pipeline for reproducible transcriptome-wide measurements of mRNA stability

escape

Easy single cell analysis platform for enrichment

HIVSeqinR

Please download the latest version. "HIVSeqinR" is an R-based pipeline that processes HIV near-full-genome sequences and classifies genomes into "intact" or into various "defective" categories. Please see Wiki tab for more information.

lab-agile-planning

minion_qc

Quality control for MinION sequencing data

Proteomic_Correlation_Shiny

A Shiny App to Support Proteomic Correlation

randomScripts

collection of various scripts

Rd2mdMKDOCS

Package for creating markdown versions of R package reference manual.

Rmagic

SCEdjvdj

SingleR

A (history-edited) clone of https://github.com/dviraran/SingleR, in preparation for a Bioconductor submission.

SingleRBook-base

Contents to be compiled into the SingleR book.

SNAPP

SNAPP sequencing data pipeline - haplotypes from targeted amplicon sequencing

STUtility

ThrivingInBioinformatics

wp2md

A script to convert Wordpress XML dump to markdown files