bioc-issue-bot
commented
1 year ago Hi @mrbakhsh
Thanks for submitting your package. We are taking a quick look at it and you will hear back from us soon.
The DESCRIPTION file for this package is:
Package: DeProViR
Type: Package
Title: A Deep-Learning Framework Based on Pre-trained Sequence Embeddings for
Predicting Host-Viral Protein-Protein Interactions
Version: 0.99.0
Authors@R: c(
person("Matineh", "Rahmatbakhsh", ,"matinerb.94@gmail.com",c("aut","trl","cre")))
Description: Emerging infectious diseases, exemplified by the zoonotic COVID-19
pandemic caused by SARS-CoV-2, are grave global threats. Understanding
protein-protein interactions (PPIs) between host and viral proteins is
essential for therapeutic targets and insights into pathogen replication and
immune evasion. While experimental methods like yeast two-hybrid screening and
mass spectrometry provide valuable insights, they are hindered by experimental
noise and costs, yielding incomplete interaction maps. Computational models,
notably DeProViR, predict PPIs from amino acid sequences, incorporating
semantic information with GloVe embeddings. DeProViR employs a Siamese
neural network, integrating convolutional and Bi-LSTM networks to enhance
accuracy. It overcomes the limitations of feature engineering, offering an
efficient means to predict host-virus interactions, which holds promise
for antiviral therapies and advancing our understanding of infectious diseases.
License: MIT+ file LICENSE
Encoding: UTF-8
URL: https://github.com/mrbakhsh/DeProViR
BugReports: https://github.com/mrbakhsh/DeProViR/issues
Depends:
keras
Imports:
caret,
data.table,
dplyr,
fmsb,
ggplot2,
grDevices,
pROC,
PRROC,
readr,
stats
VignetteBuilder: knitr
Suggests:
rmarkdown,
tensorflow,
reticulate,
BiocStyle,
RUnit,
knitr,
BiocGenerics
biocViews:
Proteomics,
SystemsBiology,
NetworkInference,
NeuralNetwork,
Network
RoxygenNote: 7.2.3
lshep
mrbakhsh
vjcitn
hpages
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