Heatmap
The Heatmap tool accepts a matrix data file as input and allows users to filter, normalize and cluster data. The primary use case for heatmaps is cluster analysis of gene expression level between different samples.
Gene Annotation
The Gene Annotation tool performs gene annotation based on sequence alignment of input FASTA files against various databases.
Basic Local Alignment Search Tool (BLAST)
The BLAST tool is an BMKCloud integrated version of NCBI BLAST and can be used to perform the same functions using data uploaded to the BMKCloud account.
CDS_UTR Prediction
The CDS_UTR Prediction tool is designed to predict coding regions (CDS) and non-coding regions (UTR) in given transcript sequences based on BLAST results against known protein databases and ORF prediction outcomes.
Manhattan Plot
The Manhattan Plot tool enables display of high sample experiments and is commonly used in genome-wide association studies (GWAS).
Circos Diagram
The CIRCOS Diagram tool provides efficient visualization of how genomic feature are distributed across the genome. Common features include quantitative loci, SNPs, InDels, structural and copy number variants.
Gene Ontology (GO) Enrichment
The GO Enrichment tool provides functional enrichment analysis. The primary software in this tool is the TopGO-Bioconductor package, which includes differential expression analysis, GO enrichment analysis and visualization of the results.
Weighted Gene Co-expression Network Analysis (WGCNA)
WGCNA is a widely used data mining method for discovering gene co-expression modules. It is applicable to various expression dataset including microarray and NGS gene expression data.
InterProScan
The InterProScan tool provides InterPro protein sequence analysis and classification.
GO KEGG Enrichment
The GO KEGG Enrichment tool is design to generate a GO enrichment histogram, KEGG enrichment histogram and KEGG enrichment pathway based on a provided gene set and corresponding annotation.