Test data to be used for automated testing with the nf-core pipelines
This branch contains test data for the nf-core/chipseq pipeline.
design.csv: Experiment design file for minimal test dataset
design_full.csv: Experiment design file for full test dataset
reference/: Genome reference files
testdata/ : Sub-sampled FastQ files sub-sampled
H. sapiens single-end ChIP-seq dataset was obtained from 2 separate studies as described here.
| SRA ID | GEO ID | SAMPLE NAME |
|---|---|---|
| SRR1635435 | GSM1534712 | ChIP-seq_Input_Vehicle_rep1 |
| SRR1635436 | GSM1534713 | ChIP-seq_Input_Vehicle_rep2 |
| SRR1635437 | GSM1534714 | ChIP-seq_Input_E2_rep1 |
| SRR1635438 | GSM1534715 | ChIP-seq_Input_E2_rep2 |
| SRR1635459 | GSM1534736 | ChIP-seq_FoxA1_Vehicle_rep1 |
| SRR1635460 | GSM1534737 | ChIP-seq_FoxA1_Vehicle_rep2 |
| SRR1635461 | GSM1534738 | ChIP-seq_FoxA1_E2_rep1 |
| SRR1635462 | GSM1534739 | ChIP-seq_FoxA1_E2_rep2 |
| SRA ID | GEO ID | SAMPLE NAME |
|---|---|---|
| SRR1285070 | GSM1385748 | NTKO_EZH2_ChIPseq_1 |
| SRR1285071 | GSM1385749 | NTKO_EZH2_ChIPseq_2 |
| SRR1285072 | GSM1385750 | TKO_EZH2_ChIPseq_1 |
| SRR1285073 | GSM1385751 | TKO_EZH2_ChIPseq_2 |
| SRR1285074 | GSM1385752 | NTKO_Input_ChIPseq_1 |
| SRR1285075 | GSM1385753 | NTKO_Input_ChIPseq_2 |
| SRR1285076 | GSM1385754 | TKO_Input_ChIPseq_1 |
| SRR1285077 | GSM1385755 | TKO_Input_ChIPseq_2 |