.. Normalization of cancer data documentation master file, created by sphinx-quickstart on Mon Jun 12 18:58:45 2017. You can adapt this file completely to your liking, but it should at least contain the root `toctree` directive. Normalization of cancer data ======================================================== .. toctree:: :maxdepth: 2 :caption: Contents: Simulation ========== Highly rearranged genome ------------------------ - `matrix `__ - `bed `__ - `segmentation (inferred) `__ - `segmentation (ground truth) `__ Aneuploid genome ---------------- - `matrix `__ - `bed `__ - `segmentation (inferred) `__ - `segmentation (ground truth) `__ Copy Number Variation bed files ------------------------------- The following zip file contains all the bed files used to perform the 100 simulations to assess copy number variation detection using Hi-C data. - `zip file containing all bed files `__ Real data ========= Diploid data sets ------------------ Rao *** - `matrix `__ - `bed `__ MCF10A ****** - `matrix `__ - `bed `__ - `ICE `__ Breast cancer Hi-C data ----------------------- MCF7 **** - `matrix `__ - `bed `__ - `segmentation `__ - `ICE `__ - `ICE - Observed/Expected `__ - `LOIC `__ - `LOIC - Observed/Expected `__ - `CAIC `__ - `CAIC - Observed/Expected `__ T47D ***** - `matrix `__ - `bed `__ - `segmentation `__ - `ICE `__ - `ICE - Observed/Expected `__ - `LOIC `__ - `LOIC - Observed/Expected `__ - `CAIC `__ - `CAIC - Observed/Expected `__ Capture Hi-C ------------ Wildtype ******** - `matrix `__ - `bed `__ - `segmentation `__ Dup C ****** - `matrix `__ - `bed `__ - `segmentation `__ Dup L ****** - `matrix `__ - `bed `__ - `segmentation `__ Dup S ****** - `matrix `__ - `bed `__ - `segmentation `__