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ankh

Ankh: Optimized Protein Language Model

boruta_py

Python implementations of the Boruta all-relevant feature selection method.

cppred-sorf-wrapper

CPPred-sORF wrapper

deepcpp

DeepCPP, a program making protein coding potential prediction.

deepd2v

Modeling in-vivo protein-DNA binding with a hybrid deep neural network from Combined DNA Sequence

dna-transformer

drug-target-prediction

edlmppi

esm

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

ispl

A bioinformatics tool for identifying plant lncRNA-encoded short peptides

lncadeep

LncADeep is an ab initio lncRNA identification and functional annotation tool based on deep learning

lncscore

A python package for the identification of lncRNA from the assembled novel transcripts

lpa_dl

LncRNA-protein interaction prediction based on LSTM with feature optimization

m5cpred-xs

m5c sites prediction tool

mathfeature

Feature Extraction Package for Biological Sequences

ppsno

predlnc-gfstack

pseudeep

rnabert

senet

Squeeze-and-Excitation Networks

sorfplnc

Hybrid sampling for extremely imbalanced and high-dimensional datasets to find the small open reading frames in plant long noncoding RNA

sorfpp

Experimental comparisons reveal the positive impact of integrating nucleotide and deep encoding features. Additionally, utilizing an ensemble learning framework to fuse results from base models contributes to enhancing predictive performance. The experiments indicate that SORFPP is a reliable method for identifying the activity of SEPs.

sorfpred

sORFPred: a method based on comprehensive features and ensemble learning to predict the sORFs in plant lncRNAs

stacking

集成学习Stacking方法详解