Data Import

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This section presents a summary of the data import step.

Data type Bisulfite sequencing data set
Data source /DEEP_fhgfs/projects/mscherer/data/RRBS/Ewing_complete/bed
Genome assembly used hg38
Number of samples 188
Number of sites 5658698
Detection p-values absent
coverage information is present

Sample Annotation

The loaded dataset includes a table of sample annotations describing the following traits:

No. Trait Missing Values Type
1 sample_id identifiers or text
2 sample_timepoint 35 categories or text
3 patient_age 8 numbers
4 patient_sex 29 categories or text
5 metastases_at_diagnosis 54 categories or text
6 relapse 45 categories or text
7 relapse_time 116 categories or text
8 tumor_location_general 90 categories or text
9 tumor_location 66 categories or text
10 tumor_size 102 categories or text
11 tumor_purity 48 categories or text
12 sample_source 48 categories or text
13 sample_type 48 categories or text
14 STAG2_mutation 109 categories or text
15 TP53_mutation 109 categories or text
16 CDKN2A_deletion 109 categories or text
17 epi_mutation 109 categories or text
18 cell_line_name 172 categories or text
19 matched_tumor_id 182 categories or text
20 sample_location 156 categories or text
21 disease_state 156 categories or text
22 disease_type_detailed categories or text
23 disease_type categories or text
24 filename identifiers or text
25 SRR_id identifiers or text
26 comp.column 32 categories or text
27 Tissue_vs_MSC 16 categories or text
28 Predicted Male Probability numbers or identifiers
29 Predicted Gender categories or text

The full sample annotation table is available as a comma-separated value file accompanying this report.