v0.9.0 (pre-release)

Preparatory pre-release for conda packaging / Bioconda recipe smoke-testing. Not a stable release — the first stable release (v1.0.0) will follow the big-refactor merge into main.

EPICC v0.1.4

Latest stable version, improved at all levels

EPICC v0.1.3

Made PUBLIC

New features:
ChIPseq Upset plots.
Annotate regions based on distance to closest gene.
Stranded heatmaps on all samples with scaling options, profiles on target regions.

EPICC-builder for samplefile checks!

epicbutton v0.1.2

Added Gene Ontology analysis for RNAseq
Stabilized TF ChIPseq with motifs analysis
Misc changes

epicbutton v0.1.1

Added differential analysis of sRNAs
Fixed ChIPseq peaks
Misc changes

epicbutton v0.1.0

First stable version.
Prepare references, indexes, download fastqs.
ChIP-seq -> call peaks; best peaks (merge+pseudoreps); IDR on replicates; plot mapping stats; plot peak stats; create bigwigs.
next target: Upset plots.
RNA-seq -> call DEGs; plot mapping stats; summary tables pairwise DEGs and unique DEGs; plot expression level; create stranded bigwigs.
next target: GO.
sRNA-seq -> filter structural RNAs; help to create fa with Rfam; call clusters; plot size distributions; create stranded bigwigs per size.
next target: Differential expression with featurecounts
mC -> call DMRs; plot mapping stats; create stranded bigwigs per context.
next target: mC levels on genes
Next target for data-types: TFs to confirm + Motifs; RAMPAGE to confirm + call TSS.
Next target for combined analysis: Heatmaps