Table 1 Capabilities of BAMScale and other publicly available tools

Creating coverage tracks

 ChIP-seq/ATAC-seq

X

X

X

*

X

 ChIP-seq/ATAC-seq (normalized)

X

X

X

 Log2 coverage (replication timing)

X

X

 OK-seq (RFD calculation)

X

 RNA-seq

X

*

*

*

X

 RNA-seq (splice-aware)

X

 Stranded coverage

X

X

Quantifying peaks

 Raw read counts

x

x

 Normalized read counts

x