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introtodatavis

An introduction to data visualization

introtohtmlcssjs

An introduction to HTML + CSS + JS

ipython

Official repository for IPython itself. Other repos in the IPython organization contain things like the website, documentation builds, etc.

jitterbug

Jitterbug is a bioinformatic software that predicts insertion sites of transposable elements in a sample sequenced by short paired-end reads with respect to an assembled reference.

kallisto-transcriptome-indices

Reference transcriptome indices build from kallisto for popular organisms

machine-learning-with-python

Python code for common Machine Learning Algorithms

maftools

Summarize, Analyze and Visualize MAF files from TCGA or in house studies.

minfi

Devel repository for minfi

mosaicforecast

A mosaic detecting software based on phasing and random forest

mutation-signatures

Create mutation signatures from MAF's, and decompose them into Stratton signatures

mutationalpatterns

R package for extracting and visualizing mutational patterns in base substitution catalogues

nextstepsinpython

Self-guided notebooks for advanced beginner and intermediate Python coders

oboformat

Automatically exported from code.google.com/p/oboformat

parse-cosmic

Script to carefully parse through and standardize somatic variant lists from COSMIC

penncnv

Copy number vaiation detection from SNP arrays

pheweb

A tool to build multi-phenotype GWAS browsers

poolr

Package for pooling the results from (dependent) tests

programmingconcepts

materials for Programming Concepts workshop

prs-tutorial

A tutorial on how to run basic polygenic risk score analysis

py4e

Web site for www.py4e.com and source to the Python 3.0 textbook

pydata-book

Materials and IPython notebooks for "Python for Data Analysis" by Wes McKinney, published by O'Reilly Media

r-large-scale

Materials for RCC workshop, "Large-scale data analysis in R."

r-online-2020

Intro to R Workshop Online for June 2020

r4ds-exercise-solutions

Exercise solutions to "R for Data Science"

radia

RADIA: RNA and DNA Integrated Analysis for Somatic Mutation Detection

rcircos

:exclamation: This is a read-only mirror of the CRAN R package repository. RCircos — Circos 2D Track Plot. Homepage: http://bitbucket.org/henryhzhang/rcircos

rmats2sashimiplot

rna-seq-pipeline

sccaller

Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data

sccnv

SCCNV: a software tool for identifying copy number variation from single-cell whole-genome sequencing