BrentLab

C

Twinscan

 2  0
Twinscan is a suite of software for gene-structure prediction. Twinscan is currently available for Mammals, Caenorhabditis (worm), Dicot plants, and Cryptococci.

Nscan

 1  0
N-SCAN is a suite of software for gene-structure prediction. N-SCAN is available for human and Drosophila (fruitfly).
Jupyter Notebook

TFPertRespExplainer

 2  1
Predict genes' response to perturbations and explains which genomic factors determine the response predictions.
Perl

ppfinder

 1  0
PPFINDER is a Perl-based procedure for finding processed pseudogenes in genome annotations (GTF format). PPFINDER identifies pseudogenes using two different methods, and creates a GTF file with pseudogene coordinates that can be used for masking the genome sequence.
Python

TFA-evaluation

 2  1

yeastdnnexplorer

 1  3
A development environment to explore implementations of deep neural networks for predicting the relationship between transcription factor and target genes using binding and perturbation data
R

NetProphet_2.0

 12  5
A “data light” TF-network mapping algorithm using only gene expression and genome sequence data.

NetProphet_3.0

 2  1

GOeval

 1  0
Gene Regulatory Network Evaluation Using Gene Ontology

brentlabRnaSeqTools

 0  1
Rust

Dual_Threshold_Optimization

 4  1
Dual Threshold Optimization compares two ranked lists of features (e.g. genes) to determine the rank threshold for each list that minimizes the hypergeometric p-value of the overlap of features. It then calculates a permutation based empirical p-value and an FDR
Shell

dockerize_rstudio_server

 1  0