Galaxy Workflow ' TCF4 ChIP Seq'

Annotation:

StepAnnotation
Step 1: Input dataset
select at runtime
Input BED file of positive regions
Step 2: Generate Null Sequence
10
0.02
0.02
1
Output dataset 'output' from step 1
select at runtime
hg19
Step 3: Extract Genomic DNA
Output dataset 'output' from step 1
Yes
Locally cached
FASTA
Step 4: Extract Genomic DNA
Output dataset 'nullseq_output' from step 2
Yes
Locally cached
FASTA
Step 5: Train SVM
Output dataset 'out_file1' from step 3
Output dataset 'out_file1' from step 4
Spectrum Kernel
6
10
Automatic
1.0
1e-05
Step 6: Plot Precision-Recall Curve
Output dataset 'CV_predictions' from step 5
Step 7: Plot ROC Curve
Output dataset 'CV_predictions' from step 5
Step 8: Kmer To MEME
Output dataset 'SVM_weights' from step 5
10
Step 9: Tomtom
Output dataset 'MEME for Kmers' from step 8
0.5
q-value
Pearson