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bowtie2

A fast and sensitive gapped read aligner

cagrid2

The caGrid2 project includes enhancements to the caGrid core services to support WS* and SHA2, which enables the National Cancer Informatics Platform's interoperability strategy.

cgdata

Python API to work with the cgData standard

courses

Course materials for the Data Science Specialization: https://www.coursera.org/specialization/jhudatascience/1

cromwell

Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to massive scale production environments

csv-module

read .csv file

ctat-mutations

Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19

ctat-splicing

detection of cancer splicing aberrations

datamicroarray

A collection of small-sample, high-dimensional microarray data sets to assess machine-learning algorithms and models.

dbaccess

data base access

episphere-pancreas-cancer

fibonacci-recursions

Fibonacci recursions

nci-term-browser

The NCI Term Browser is a web-based browser that allows users to search all terminologies, value sets and mappings on the LexEVS terminology server, to browse individual sources, and to easily follow the many links that connect them.

oncomap_map

palindrome

sequence that reads same both backward as forward

pandas

Data analysis / manipulation library for Python, providing labeled data structures similar to R data.frame objects, statistical functions, and much more

picard

A set of tools (in Java) for working with next generation sequencing data in the BAM (http://samtools.github.io/hts-specs) format.

random-forest

Machine learning project for Predicting triple negative cancer relapse by neural network and random forest classifiers

rembrandt

REMBRANDT (REepository of Molecular BRAin Neoplasia DaTa) database was developed to allow analysis of data from molecularly characterized primary brain tumors and correlate those data with extensive retrospective and prospective clinical data.

rosetta

Tools, wrappers, etc... for data science with a concentration on text processing

testthat

An R package to make testing fun

trinity_ctat_galaxy

Files needed for Galaxy tools used to run Trinity_CTAT workflows.