Bohdan-Khomtchouk/Biochat

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Common Lisp
License
MIT License
Created almost 8 years ago
Updated over 5 years ago

Bohdan-Khomtchouk/Biochat

Bohdan-Khomtchouk

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Natural language processing of Gene Expression Omnibus data

shinyheatmap

Web application for enormous biological heatmaps

fastheatmap

Super high performance interactive heatmap software

PubData

Smart search engine for all bioinformatics databases worldwide

Microscope

ChIP-seq/RNA-seq analysis software suite for gene expression heatmaps

biosemble

AI assembly of bioNLP wordnets

HeatmapGenerator

Cross-platform GUI desktop application for making biological heatmaps

FTPwalker

PyPI package for traversing extremely large FTP directory trees

geneXtendeR

R/Bioconductor package for optimized functional annotation of ChIP-seq data

ageBioPortal

R Shiny web application for aging-related diseases

cardioinformatics

Cardioinformatics: the nexus of bioinformatics and precision cardiology

NERO-nlp

NERO-nlp is a PyPI package for biomedical Named Entity (Recognition) Ontology

gtf

R package to provide gene transfer format files from commonly investigated model organisms in ChIP-seq studies

geneSpark

geneSpark is a bioinformatics software program written in Python and Apache Spark for big data epigenetic histone modification ChIP-seq analysis.

Smalls

miRNA-UTR approximate matching algorithms in R/Python/Bash

NGStoolkit

One-stop shop for one-click NGS analyses from the command-line

Gaussian-distributed-codon-frequencies-of-genomes

Source code to accompany manuscript entitled "Gaussian-distributed codon frequencies of genomes" (Khomtchouk & Nonner, 2019)

happybiRthday

Calculate upcoming birthday dates of Github repos

Triglav

Variant calling format (vcf) file genomics pipeline for HPC and cloud

codon-usage

Machine learning scripts/analyses to accompany manuscript entitled "Codon usage bias levels predict taxonomic identity and genetic composition" (for code re-use/reproducibility purposes)

Jupyter Notebook

SUPERmerge

Diffuse ChIP-seq coverage island analysis algorithms

shinyDE

Web server for all differential expression (DE) callers

ENCODE_TF_geneXtendeR_analysis

geneXtendeR analysis on 547 ENCODE ChIP-seq datasets for both proximal and distal transcription factor (TF) binding peaks for all cell types

statement

Research statement et al.

ENCODE_histone_geneXtendeR_analysis

geneXtendeR analysis on 198 human histone modification ChIP-seq ENCODE datasets

peaX

Human ChIP-seq peaks data for ENCODE and ROADMAP Epigenomics

MovieSceneGiffer

An automated and more advanced and quick way of generating movie gifs

Differential-expression-scripts

Miscellaneous differential gene expression scripts in R

Bohdan-Khomtchouk.github.io

Bohdan Khomtchouk's personal website