| Miscellaneous |
| Version lineage of this tool (guids ordered most recent to oldest) |
| toolshed.g2.bx.psu.edu/repos/rnateam/methylkit/methylkit/0.99.2 (this tool) |
| methylkit |
| Requirements (dependencies defined in the <requirements> tag set) |
| name | version | type |
| bioconductor-methylkit | 0.99.2 | package |
| Functional tests |
| name | inputs | outputs | required files |
| Test-1 |
input_type|overdispersion: none pipeline: amp test_series_1|input: input_test2.myCpG.txt assembly: hg18 input_type|test: Chisq control_series_0|input: input_control1.myCpG.txt input_type|method: ward test_series_0|input: input_test1.myCpG.txt input_type|type: all control_series_1|input: input_control2.myCpG.txt input_type|adjust: SLIM input_type|qvalue_cutoff: 0.01 input_type|choice: all correlation: pearson input_type|meth_cutoff: 25 input_type|dist: correlation input_type|effect: wmean |
output_statistics: output_statistics.pdf output_correlation: output_correlation.pdf output_myDiff: output_myDiff.bedgraph output_MethPerChr: output_MethPerChr.tsv output_MethylDiff: output_MethylDiff.bedgraph output_clustering: output_clustering.pdf output_PCA: output_PCA.pdf output_seg_raw: output_seg_raw.bed output_seg_diff: output_seg_diff.bed |
input_test1.myCpG.txt input_test2.myCpG.txt input_control1.myCpG.txt input_control2.myCpG.txt output_statistics.pdf output_correlation.pdf output_myDiff.bedgraph output_MethPerChr.tsv output_MethylDiff.bedgraph output_clustering.pdf output_PCA.pdf output_seg_raw.bed output_seg_diff.bed |