Heat*seq is an attempt to make genome-wide comparison of high throughput sequencing experiments easier. It currently works with gene expression data (RNA-seq), with transcription factor ChIP-seq data, and with CAGE data. To get started, select HeatRNAseq, HeatChIPseq or HeatCAGEseq and read the instructions.
Source code is available on GitHub.
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Please cite this paper: Heat*seq: an interactive web tool for high-throughput sequencing experiment comparison with public data