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biotoolbox

Tools for querying and analysis of genomic data

birads_classifier

bird

Big data Regression for predicting DNase I hypersensitivity

bmi219-2017-deepqsar

UCSF BMI219 Deep Learning (2017), Coding example (QSAR with Deep multitask learning)

book-genekitr

📚 Book for Genekitr

bpl

Bayesian Program Learning model for one-shot learning

brie

BRIE: Bayesian Regression for Isoform Estimate

brown-white-fba

Generate flux predictions of brown and white adipocytes as performed in Ramirez et al., 2017

c-plus-plus

All Algorithms implemented in C++

cancer_metabolism

caster

CASTER: Predicting Drug Interactions with Chemical Substructure Representation (AAAI 20)

causal_inference_python_code

Python code for part 2 of the book Causal Inference, by Miguel Hernán and James Robins

causal_salad_2021

One day course on causal inference, MPI-EVA 9 September 2021

causalfs

A C/C++ open-source package of causality-based feature selection

causality-papers

causalml

Uplift modeling and causal inference with machine learning algorithms

ccem_tutorials

CCEM Image processing tutorial

celegansatacseq

The code for Daugherty, et al 2017 - Chromatin accessibility dynamics reveal novel functional enhancers in C. elegans

cellbench_data

This contains the dataset for comparing scRNA-seq analysis methods

cellinteractionscores

cellrouter

Reconstruction of complex single-cell trajectories using CellRouter

celltypeevolution

Code used in article: Tracing cell-type evolution by cross-species comparison of cell atlases

cfd

chainer-chemistry

Chainer Chemistry: A Library for Deep Learning in Biology and Chemistry

chemts

Molecule Design using Monte Carlo Tree Search with Neural Rollout

chip-seq-analysis

ChIP-seq analysis notes from Ming Tang

chm13

The complete sequence of a human genome

cipher-workflow-platform

A data processing platform for ChIP-seq, RNA-seq, MNase-seq, DNase-seq, ATAC-seq and GRO-seq datasets. Please ignore information on cipher.readthedocs.io, it is currently out of date. Follow information in README.

classsed-graphql-mern-apollo

cll-chromatin

Data analysis scripts for Rendeiro et. al, 2016 (doi:10.1038/ncomms11938)