chromHMM_demo_data: chromHMM state segmentation in the MCF7 cell line

In seqsetvis: Set Based Visualizations for Next-Gen Sequencing Data

Description

Vignette data for seqsetvis was downloaded directly from GEO series GSE57498. This data is the state segmentation by chromHMM in the MCF7 cell line. chromHMM creates a hidden markov model by integrating several ChIP-seq samples, in this case:

• MCF7_H3K27ac_ChIP-Seq

• MCF7_H3K27me3_ChIP-Seq

• MCF7_H3K4me1_ChIP-Seq

• MCF7_H3K4me3_ChIP-Seq

• MCF7_RNApolIIp_ChIP-Seq

Data from GEO series GSE57498 is from the publication Taberlay PC et al. 2014

Details

Contains:

• chromHMM_demo_overlaps_gr

• chromHMM_demo_bw_states_gr

• chromHMM_demo_state_total_widths

• chromHMM_demo_state_colors

• chromHMM_demo_segmentation_url

• chromHMM_demo_chain_url

seqsetvis documentation built on Nov. 8, 2020, 5:57 p.m.