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antsrnet

Medical image analysis framework merging ANTsR and deep learning

awesome-bioinformatics

A curated list of awesome Bioinformatics libraries and software.

awesome-biological-visualizations

A list of web-based interactive biological data visualizations.

awesome-genome-visualization

A list of interesting genome browser or genome-browser-like implementations

awesome-reproducible-research

A curated list of reproducible research case studies, projects, tutorials, and media

awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

bioinformatics-resources

A curated list of resources for learning bioinformatics.

camthc

Convex Analysis of Mixtures for Tissue Heterogeneity Characterization

captk

Cancer Imaging Phenomics Toolkit (CaPTk) is a software platform to perform image analysis and predictive modeling tasks. Documentation: https://cbica.github.io/CaPTk

chatpaper

Use ChatGPT to summarize the arXiv papers. 全流程加速科研，利用chatgpt进行论文总结+润色+审稿+审稿回复

clustassess

A set of tools for assessing clustering robustness

data-analysis

Data Science Using Python

dnam-based-age-predictor

A chronological age predictor based on DNA methylation

estimateclonality

Forked from https://bitbucket.org/nmcgranahan/pancancerclonality/src/master/.

fcr2

gene-expression-deconvolution

Gene expression deconvolution

genomepy

Download and use genomes the easy way.

getting-started-with-genomics-tools-and-resources

Unix, R and python tools for genomics and data science

gse37001

RNA-Seq Analysis - Jeremy Leipzig M6A

gsgalgor

An evolutionary Algorithm for the Identification and Study of Prognostic Gene Expression Signatures in Cancer (Bioconductor)

marchionni_projects

Collaboration with Luigi Marchionni (JHU) and RIKEN with recount2 data

msisensor2

Microsatellite instability (MSI) detection for tumor only data.

optimalgenenmf

radiology

Python Codes that help to manage medical images for Machine Learning

radiomicsfeaturevisualization

Visualization for radiomics feature generated by pyradiomics

rnacocktail

scsigr

Generate signature matrix from single cell data.

single-cell-bioinformatics

Course material in notebook format for learning about single cell bioinformatics methods

singlecell_pnm

:sparkles: Code and figures accompanying the paper, "Single-cell alternative splicing analysis with Expedition reveals splicing dynamics during neuron differentiation" by Song and Botvinnik, et al

tcgamutations

R data package for pre-compiled somatic mutations from TCGA cohorts (from Broad Firehose and TCGA MC3 Project)