histone-modifications
There are 21 repositories under histone-modifications topic.
crazyhottommy/ChIP-seq-analysis
ChIP-seq analysis notes from Ming Tang
dohlee/chromoformer
The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
satijalab/scChromHMM
š§¬ š¦ A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.
YosefLab/epitome
Pipeline for predicting ChIP-seq peaks in novel cell types using chromatin accessibility
Bohdan-Khomtchouk/geneSpark
geneSpark is a bioinformatics software program written in Python and Apache Spark for big data epigenetic histone modification ChIP-seq analysis.
tagtag/TDbasedUFE
This is a R package that intends to perform all the features possible by tensor decomposition based unsupervised feature extraction
Marzi-lab/CHAS
Cell type-specific Histone Acetylation Score
robert-yaman/DeepChrome_tensorflow
Using CNNs to model affect of histone modification on gene expression
Bohdan-Khomtchouk/ENCODE_histone_geneXtendeR_analysis
geneXtendeR analysis on 198 human histone modification ChIP-seq ENCODE datasets
miamib34ch/HSE-Bioinformatics
Practical and home works in the discipline Bioinformatics.
sartorlab/chipenrich
This is the fork of the Bioconductor-mirror repository. PackageĀ Homepage:Ā http://bioconductor.org/packages/devel/bioc/html/chipenrich.html BugĀ Reports:Ā https://support.bioconductor.org/p/new/post/?tag_val=chipenrich.
atnick484/simr2019
The abstract and poster for my internship under the Stanford Institutes of Medical Research at the Khatri Lab in the summer of 2019. More code/scripts can be made available upon request (I used primarily R and SQL)
neurogenomics/CUTnTag-benchmarking-analysis
Processing, benchmarking and analysis of CUT&Tag against ENCODE ChIP-seq.
benja0x40/Tightrope
ChIP-seq normalization according to background reads density. (R package)
curlyphysicist/BIOINFO
my master's research in bioinformatics
ly-zhu/CRNN-gene-expression-with-histone-modifications
Gene expression prediction with Convolutional Recurrent Neural Networks
neurogenomics/CUT_n_TAG
Preprocessing pipeline for CUT&TAG data.
rj60001/HMI
Histone Modification Interpreter
shaorray/Nucount
A nucleosomal reads counting tool
MahShaaban/segmenterNote
A technical note to describe the segmenter package
YogiOnBioinformatics/ChIP-Seq-Analysis-Nanog-and-H3K27Ac
Independent project I undertook to perform a full ChIP-Seq analysis of the transcription factor Nanog in Zebrafish embryos.