Al3n70rn's repositories
AllenBrainPy
Python package to analyze Allen Humap Brain genes expression
BackSPIN
Biclustering algorithm
bamMetrics
Tool to generate bam statistics and pdf/html reports.
brainbrowser
Web-based visualization tools for neurological data.
Deconvolution2016
Simulation code and manuscript files for Aaron and Karsten's deconvolution paper.
diff_splice_paper
Code for differential splicing comparison paper (Soneson, Matthes, et al.)
dygraphs
R interface to dygraphs
EventPointer
R package to identify alternative splicing events using junction microarrays
fishplot
Create timecourse "fish plots" that show changes in the clonal architecture of tumors
Fred2
Python-based framework for computational immunomics
iGEMS_scripts
Scripts accompanying the manuscript 'iGEMS: an integrated model for identification of alternative exon usage events'
lollipops
Lollipop-style mutation diagrams for annotating genetic variations.
maftools
Summarize, Analyze and Visualize MAF files from TCGA or in house studies.
Momocs
Morphometrics using R
MutationalPatterns
R package for extracting and visualizing mutational patterns in SNV data
phyloseq
phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; and to reproducibly share that data and analysis with others. See the phyloseq front page:
RNiftyReg
An R interface to the NiftyReg medical image registration library
rthreejs
Three.js widgets for R and shiny
scater
Single cell analysis tools for expression from RNA-seq in R
scater_tutorials_open_data
A set of tutorials using the scater package to QC publicly available single-cell expression data sets
sufam
Super sensitive mutation validator, uses sam/bam and vcf
tracer
TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data
vcfR
Tools to work with variant call format files
VDJPuzzle
T cell Receptor and B cell Receptor assembly from single cell RNA sequencing data