scSGC

Soft graph clustering for single-cell RNA sequencing data.

2025.12.0300

Searchlight2

Searchlight: automated bulk RNA-seq exploration and visualisation using dynamically generated R scripts

2022.01.1970

CHIPIN

CHIPIN: ChIP-seq inter-sample normalization based on signal invariance across transcriptionally constant genes

2022.01.1970

NOREC4DNA

NOREC4DNA: using near-optimal rateless erasure codes for DNA storage

2022.01.1970

CoSTA

CoSTA: unsupervised convolutional neural network learning for spatial transcriptomics analysis

2022.01.1970

Co-AMPpred

Co-AMPpred for in silico-aided predictions of antimicrobial peptides by integrating composition-based features

2022.01.1980

COPLA

COPLA, a taxonomic classifier of plasmids

2022.01.1970

NNPS

A neural network-based method for polypharmacy side effects prediction

2022.01.1990

GAT-LI

GAT-LI: a graph attention network based learning and interpreting method for functional brain network classification

2022.01.1970

MUREN

MUREN: a robust and multi-reference approach of RNA-seq transcript normalization

2022.01.1980

MSCFS

MSCFS: inferring circRNA functional similarity based on multiple data sources

2022.01.1970

MitoTox

MitoTox: a comprehensive mitochondrial toxicity database

2022.01.1970

BiGAN

BiGAN: LncRNA-disease association prediction based on bidirectional generative adversarial network

2022.01.1970

PDBeCIF

PDBeCIF: an open-source mmCIF/CIF parsing and processing package

2022.01.1970

mLoc-mRNA

mLoc-mRNA: predicting multiple sub-cellular localization of mRNAs using random forest algorithm coupled with feature selection via elastic net

2022.01.1970

FEGS

FEGS: a novel feature extraction model for protein sequences and its applications

2022.01.1970

CROCS

Increased peak detection accuracy in over-dispersed ChIP-seq data with supervised segmentation models

2022.01.1970

ExoPred

Prediction of unconventional protein secretion by exosomes

2022.01.1980

RNAdetector

RNAdetector: a free user-friendly stand-alone and cloud-based system for RNA-Seq data analysis

2022.01.1970

SMILE

SMILE: systems metabolomics using interpretable learning and evolution

2022.01.1970

JDC

A novel essential protein identification method based on PPI networks and gene expression data

2022.01.1970

Capsule-LPI

Capsule-LPI: a LncRNA?€?protein interaction predicting tool based on a capsule network

2022.01.1970

CancerSiamese

CancerSiamese: one-shot learning for predicting primary and metastatic tumor types unseen during model training

2022.01.1970

SMALF

SMALF: miRNA-disease associations prediction based on stacked autoencoder and XGBoost

2022.01.1970

Correlation AnalyzeR

Correlation AnalyzeR: functional predictions from gene co-expression correlations

2022.01.1980

modelbase

Constructing and analysing dynamic models with modelbase v1.2.3: a software update

2022.01.1970

CEMDA

Combined embedding model for MiRNA-disease association prediction

2022.01.1970

Boosting heritability

Boosting heritability: estimating the genetic component of phenotypic variation with multiple sample splitting

2022.01.1970

SAveRUNNER

SAveRUNNER: an R-based tool for drug repurposing

2022.01.1980

VGAELDA

A representation learning model based on variational inference and graph autoencoder for predicting lncRNA-disease associations

2022.01.1970

SVExpress

SVExpress: identifying gene features altered recurrently in expression with nearby structural variant breakpoints

2022.01.1980

EDLMFC

EDLMFC: an ensemble deep learning framework with multi-scale features combination for ncRNA?€?protein interaction prediction

2022.01.1970

WALTER

WALTER: an easy way to online evaluate telomere lengths from terminal restriction fragment analysis

2022.01.1970

Y-LineageTracker

Y-LineageTracker: a high-throughput analysis framework for Y-chromosomal next-generation sequencing data

2022.01.1970

vcf2fhir

vcf2fhir: a utility to convert VCF files into HL7 FHIR format for genomics-EHR integration

2022.01.1970

ContigExtender

ContigExtender: a new approach to improving de novo sequence assembly for viral metagenomics data

2022.01.1970

PnB Designer

PnB Designer: a web application to design prime and base editor guide RNAs for animals and plants

2022.01.1970

RWRF

Multi-dimensional data integration algorithm based on random walk with restart

2022.01.1970

PIKE-R2P

PIKE-R2P: Protein?€?protein interaction network-based knowledge embedding with graph neural network for single-cell RNA to protein prediction

2022.01.1970

lncEvo

lncEvo: automated identification and conservation study of long noncoding RNAs

2022.01.1970