GitHub topics: motif-analysis
febos/ARTEM-KT
Applying ARTEM to RNA tertiary motif search using kink-turns as an example
Language: Jupyter Notebook - Size: 273 MB - Last synced at: 3 days ago - Pushed at: 4 days ago - Stars: 1 - Forks: 0
MicrobialDarkMatter/nanomotif
Nanomotif - a tool for identifying methylated motifs in metagenomic samples
Language: Python - Size: 11.3 MB - Last synced at: 13 days ago - Pushed at: 13 days ago - Stars: 26 - Forks: 1
j-andrews7/pytfmpval 📦
Python bindings for the TFM-Pvalue program.
Language: C++ - Size: 330 KB - Last synced at: 10 days ago - Pushed at: almost 5 years ago - Stars: 9 - Forks: 5
Shuyib/Phylogenetic-tree-study
Estimating Phylogenetic trees using six microorganisms 16S rRNA gene with Unsupervised Learning, web based tools and Molecular Evolutionary Genetics Analysis MEGA7
Language: Jupyter Notebook - Size: 3.48 MB - Last synced at: 21 days ago - Pushed at: 21 days ago - Stars: 4 - Forks: 5
bjmt/universalmotif
Motif manipulation functions for R.
Language: R - Size: 12.9 MB - Last synced at: 4 days ago - Pushed at: 26 days ago - Stars: 28 - Forks: 8
astamr/bayesReact
Model to evaluate the distribution of Regular Expressions (REs) across a ranked sequence list.
Language: HTML - Size: 1.9 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 0 - Forks: 0
evanseitz/squid-nn
surrogate quantitative interpretability for deepnets
Language: Python - Size: 3.81 MB - Last synced at: about 2 months ago - Pushed at: about 2 months ago - Stars: 21 - Forks: 1
baggepinnen/MatrixProfile.jl
Time-series analysis using the Matrix profile in Julia
Language: Julia - Size: 227 KB - Last synced at: 14 days ago - Pushed at: 3 months ago - Stars: 34 - Forks: 6
VorontsovIE/diHOCOMOCO
Scripts for motif assessment for HOCOMOCO v10/v11.
Language: Ruby - Size: 17.7 MB - Last synced at: 3 months ago - Pushed at: 3 months ago - Stars: 4 - Forks: 0
CostaLab/reg-gen
Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
Language: Python - Size: 80 MB - Last synced at: about 23 hours ago - Pushed at: 6 months ago - Stars: 108 - Forks: 30
soedinglab/BaMMmotif2
Bayesian Markov Model motif discovery tool version 2 - An expectation maximization algorithm for the de novo discovery of enriched motifs as modelled by higher-order Markov models.
Language: C++ - Size: 9.23 MB - Last synced at: 21 days ago - Pushed at: over 4 years ago - Stars: 13 - Forks: 5
eugene-kamenev/tsmp4j
Time Series with Matrix Profile in Java
Language: Java - Size: 432 KB - Last synced at: about 1 month ago - Pushed at: 9 months ago - Stars: 4 - Forks: 1
Gagniuc/Sequence-Logos-using-logarithms
Sequence Logos using logarithms is an alternative that provides full control over how the graphics of a Sequence Logo should look like. All the inner workings of this open source application are written in native javascript. The application is independent of the internet once it is saved as a html file.
Language: HTML - Size: 44.9 KB - Last synced at: 2 months ago - Pushed at: about 3 years ago - Stars: 4 - Forks: 0
Gagniuc/Sequence-Logos-based-on-maximum-values
Sequence Logos based on maximum values is an alternative that provides full control over how the graphics of a Sequence Logo should look like. All the inner workings of this open source application are written in native javascript. The application is independent of the internet.
Language: HTML - Size: 44.9 KB - Last synced at: about 1 month ago - Pushed at: about 3 years ago - Stars: 4 - Forks: 1
saketkc/pyseqlogo
Python package to plot sequence logos
Language: Python - Size: 10.6 MB - Last synced at: about 1 month ago - Pushed at: over 1 year ago - Stars: 29 - Forks: 19
Gagniuc/Sequence-Logo-relative-style-with-axes
Sequence Logo - relative style with axes is an alternative that provides full control over how the graphics of a Sequence Logo should look like. All the inner workings of this open source application are written in native javascript. The application is independent of the internet once it is saved as a html file.
Language: HTML - Size: 264 KB - Last synced at: 2 months ago - Pushed at: about 3 years ago - Stars: 4 - Forks: 0
JasonLinjc/deepMotifSyn
A deep learning approach to synthesize heterodimeric DNA motifs
Language: Jupyter Notebook - Size: 138 MB - Last synced at: 11 months ago - Pushed at: almost 4 years ago - Stars: 0 - Forks: 0
jawa23bio/ATAC-Seq
Comprehensive analysis pipeline for ATAC-seq data including QC, alignment, peak calling, annotation, motif analysis, and gene enrichment. Delivers key insights and reproducible results for chromatin accessibility studies.
Language: HTML - Size: 4.91 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0
GiorgioMB/auto_dotmotif
Automatic Motif Detection wrapper for dotmotif
Language: Python - Size: 471 KB - Last synced at: 7 months ago - Pushed at: about 1 year ago - Stars: 0 - Forks: 0
Gagniuc/Motif-detection-VB6
This application searches inside a text sequence for words that resemble those inside a list of similar words.
Language: Visual Basic 6.0 - Size: 8.69 MB - Last synced at: 2 months ago - Pushed at: over 2 years ago - Stars: 8 - Forks: 4
evanseitz/squid-manuscript
squid repository for manuscript analysis
Language: Python - Size: 165 MB - Last synced at: about 1 year ago - Pushed at: about 1 year ago - Stars: 1 - Forks: 0
pbloem/motive
A proof-of-concept library for motif analysis using MDL techniques.
Language: Java - Size: 105 KB - Last synced at: about 1 month ago - Pushed at: almost 3 years ago - Stars: 6 - Forks: 0
TanerArslan/farnesylation_motif_search
Proteome-wide motif search for specific PTM(Post Translational Modification)
Language: Python - Size: 16.8 MB - Last synced at: over 1 year ago - Pushed at: over 1 year ago - Stars: 0 - Forks: 0
Gagniuc/DNA-motif-sequences-to-Sequence-Logos
This implementation is an alternative that provides full control over how the graphics of a Sequence Logo should look like, and is an alternative to an application called WebLogo. All the inner workings of this open source application are written in native javascript. The application is independent of the internet once it is saved as a html file.
Language: HTML - Size: 106 KB - Last synced at: 2 months ago - Pushed at: about 3 years ago - Stars: 3 - Forks: 0
almeidasilvaf/magrene
Motif analysis in gene regulatory networks
Language: R - Size: 2.91 MB - Last synced at: 20 days ago - Pushed at: about 2 years ago - Stars: 1 - Forks: 0
Gagniuc/Sequence-Logo-block-style-with-axes
Sequence Logo - block style with axes (native Java Script) is an alternative that provides full control over how the graphics of a Sequence Logo should look like. All the inner workings of this open source application are written in native javascript. The application is independent of the internet.
Language: HTML - Size: 279 KB - Last synced at: 2 months ago - Pushed at: about 3 years ago - Stars: 2 - Forks: 0
zeyang-shen/maggie
Bioinformatic approach to identify functional transcription factor binding motifs
Language: Python - Size: 169 MB - Last synced at: about 2 years ago - Pushed at: about 3 years ago - Stars: 7 - Forks: 0
romain-villa/diff-motif_project
Enrichment analysis of motifs with ancient and recent CNEs
Language: R - Size: 250 KB - Last synced at: 3 months ago - Pushed at: almost 2 years ago - Stars: 0 - Forks: 1
lalebot/pip-prom-tom
Pipeline webscraping to extract and download Solanum lycopersicum promotors
Language: Python - Size: 3.72 MB - Last synced at: about 2 years ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0
Carry1995G/Towards_epigenetic_signature_of_RY_and_Telobox_related_cis-motifs
Bioinformatic cis-motif-, H3K27me3 correlation- and GO-analysis conducted for my master's thesis
Language: Shell - Size: 98.6 KB - Last synced at: about 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0
shao-lab/MAmotif
An integrative toolkit for detecting cell type-specific regulators
Language: Python - Size: 15.7 MB - Last synced at: 12 days ago - Pushed at: almost 5 years ago - Stars: 2 - Forks: 0
tksaha/random-graph-generator
Random Graph Generation
Language: Python - Size: 16.6 KB - Last synced at: almost 2 years ago - Pushed at: almost 5 years ago - Stars: 0 - Forks: 1
jazzwang/f-motif
Protein phosphorylation motif finder based on clustering analysis
Language: Java - Size: 109 MB - Last synced at: about 2 years ago - Pushed at: almost 8 years ago - Stars: 1 - Forks: 0
shahrivari/jackrabbit
Fast Motif Finder
Language: Kotlin - Size: 63.5 KB - Last synced at: about 2 years ago - Pushed at: over 7 years ago - Stars: 2 - Forks: 1
dieterich-lab/siteblast
Rapid and sensitive local alignment of genomic sequences employing motif anchors
Language: C - Size: 866 KB - Last synced at: about 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
pnpnpn/gimsan-py
GIMSAN: motif-finder with biologically realistic and reliable statistical significance analysis
Language: C - Size: 1.49 MB - Last synced at: over 1 year ago - Pushed at: over 9 years ago - Stars: 0 - Forks: 0
