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Search results for transcription factors
transcription-factors
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27 search results found
Pyscenic
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321
pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.
Maestro
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181
Single-cell Transcriptome and Regulome Analysis Pipeline
Dorothea
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105
R package to access DoRothEA's regulons
Netzoor
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85
netZooR is a network biology package implemented in R.
Dnabert_2
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72
The official implementation of DNABERT-2.
Netzoopy
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71
netZooPy is a network biology package implemented in Python.
Tftargets
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52
🎯 Human transcription factor target genes.
Tf Bind Transformer
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45
A repository with exploration into using transformers to predict DNA ↔ transcription factor binding
Netbooks
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36
Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo tools.
Netzoom
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25
netZooM is a network biology package implemented in MATLAB.
Bitfam
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23
BITFAM is a Bayesian approach and platform to infer transcription factor activities within individual cells using single cell RNA-sequencing data. Please see Gao S et al., Genome Research (2021) https://genome.cshlp.org/content/31/7/1296 for details.
Rtfbs_db
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21
Parse TF motifs from public databases, read into R, and scan using 'rtfbs'.
Centipede.tutorial
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20
🐛 How to use CENTIPEDE to determine if a transcription factor is bound.
Tensorflow Dnns For Predicting Dna Transcription Factor Binding
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13
Deep neural networks implemented in TensorFlow & Python for predicting whether transcription factors will bind to given DNA sequences
Homerkit
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13
Read HOMER motif analysis output in R.
Tf Prioritizer
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12
Bioinformatics pipeline to identify differentially active transcription factors between conditions using expression and epigenetic data
Sevenc
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11
7C: Computational Chromosome Conformation Capture by Correlation of ChIP-seq at CTCF motifs
Motifscan
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11
A motif discovery tool to detect the occurrences of known motifs
Netprophet_2.0
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11
A “data light” TF-network mapping algorithm using only gene expression and genome sequence data.
Timeor
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11
TIMEOR: Trajectory Inference and Mechanism Exploration with Omics Data in R
Mybmonday
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10
MYB transcription factors are one of the largest gene family in plants and control many processes. This repository provides additional background to the #MYB_Monday tweets
Pyjaspar
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9
A Pythonic interface to query and access JASPAR transcription factor motifs
Moca
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9
Ⓜ️ Tool for motif conservation analysis
Debpeak
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8
DEbPeak - Analyze and integrate multi-omics to unravel the regulation of gene expression.
Bindvae
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8
Variational Auto Encoders for learning binding signatures of transcription factors
Epitome
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8
Pipeline for predicting ChIP-seq peaks in novel cell types using chromatin accessibility
Maggie
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6
Bioinformatic approach to identify functional transcription factor binding motifs
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Dna Transcription Factors (6)
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1-27 of 27 search results
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