diff --git a/README.md b/README.md index 42952fb..4958252 100644 --- a/README.md +++ b/README.md @@ -3,11 +3,15 @@ .**cool** file **p**ile-**up**s with **py**thon. +A versatile tool to perform pile-up analysis on Hi-C data in .cool format (https://github.com/mirnylab/cooler). And who doesn't like cool pupppies? +`pip install coolpuppy` will make coolpup.py callable in your terminal. +This is the idea of how pileups work, in case you are checking whether certain regions tend to interacts with each other: -A versatile tool to perform pile-up analysis on Hi-C data in .cool format (https://github.com/mirnylab/cooler). And who doesn't like cool pupppies? -`pip install coolpuppy` will make coolpup.py callable in your terminal. + + +What's not shown here is normalization to the expected values, done here by dividing the pileups by randomly shifted control regions. In the future dividing by expected values from whole-chromosome by-diagonal average will be possible. ``` Usage: coolpup.py [-h] [--pad PAD] [--minshift MINSHIFT] [--maxshift MAXSHIFT] diff --git a/loop_quant.svg b/loop_quant.svg new file mode 100644 index 0000000..033fb85 --- /dev/null +++ b/loop_quant.svg @@ -0,0 +1,448 @@ + + + + + + + + + + + + + + + + + + + + + + image/svg+xml + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + + All averaged to calculate enrichment + + +