The data that were used in the examples were downloaded from GEO database. The corresponding accession numbers are listed below:
| Filename | GEO accession number for the raw data |
|---|---|
| yeast_SRR2045610.bam | GSM1700669 |
| yeast_50U_MNase_SRR3649301.bam | GSM2193286 |
| yeast_100U_MNase_SRR3649296.bam | GSM2193281 |
| yeast_200U_MNase_SRR3649297.bam | GSM2193282 |
| yeast_300U_MNase_SRR3649298.bam | GSM2193283 |
| yeast_400U_MNase_SRR3649299.bam | GSM2193284 |
| fly_SRR2038265.bam | GSM1694824 |
| mouse_SRR5116996.bam | GSM2430825 |
| human_SRR1781839.bam | GSM1425454 |
The size of the above data sets exceeds the allowed quota for a GitHub repository. Therefore, for convenience, we provide at the following website sets of 5 million paired-end reads randomly selected from the aforementioned data sets:
The figures shown in the examples were generated using all the reads from each GEO accession, so the figures generated using the sub-sampled data sets should look slightly different. These sub-sampled data sets are provided only to facilitate the testing of plot2DO, and should not be used for other purposes (e.g. in a publication).