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cloudml-examples

Examples of using CloudML with genomic data.

clump

CLUstering by Mutation Position

clusterdbanalysis

ITEP - Integrated Toolkit for Exploration of microbial Pan-genomes

clusterexperiment

R package of techniques for comparing clusterings of single-cell sequencing data

clustools

Tools for clustering single cell sequencing data

cmake

CMake, the cross-platform, open-source build system.

codelabs

Codelabs demonstrating usage of several tools and systems on genomic data.

codex

A normalization and copy number variation calling procedure for whole exome DNA sequencing data.

cogena

co-expressed gene-set enrichment analysis

coloncancerwgbs

Six paired tumor-normal WGBS samples from Ziller et al. (2013) PMID: 23925113. Only chr22.

comp-genomics-class

Code and examples for JHU Computational Genomics class

compare_coverage_depth

A Julia script for comparing the coverage between two chromosomes for a set of sequenced DNA samples.

compass

Combinatorial Polyfunctionality Analysis of Single Cells

complete-python-bootcamp

Lectures for Udemy - Complete Python Bootcamp Course

conda-build

Commands and tools for building conda packages

contestprogramming

Collection of complete and partial java solutions for programming contests (Codeforces, ACM ICPC)

contributions

Contribute Packages to Bioconductor

copy-number-analysis

Explore, compare, and evaluate Bioconductor packages related to genomic copy number analysis

copycat

a parallel R package for detecting copy-number alterations from short sequencing reads

coursera

Data sets and scripts for Coursera Big Data Specialization.

coursera-1

Coursera Machine Learning class exercises (converted from Octave to Python + Numpy)

coursera-scala

coursera_r_data_clean

courses

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

cpp-argparse

Python's excellent ArgumentParser in C++

crimson

Bioinformatics tool outputs converter to JSON or YAML

crispr

CRISPR/Cas9 guide RNA Design

crispr-analyser

C++ package for analysing CRISPR off targets

crispresso

Software pipeline for the analysis of CRISPR-Cas9 genome editing outcomes from sequencing data

crunch

Crunch is an Apache TLP now, and lives at http://crunch.apache.org/