Galaxy | Europe | Accessible Workflow | Intersect

Intersect

Annotation:

Step	Annotation
Step 1: Input dataset 1000bp select at runtime
Step 2: Input dataset collection input select at runtime
Step 3: bedtools Intersect intervals File A to intersect with B Output dataset 'output' from step 1 Combined or separate output files One output file per 'input B' file File B to intersect with A Output dataset 'output' from step 2 Calculation based on strandedness? Overlaps on either strand What should be written to the output file? Nothing selected. Treat split/spliced BAM or BED12 entries as distinct BED intervals when computing coverage. False Required overlap Default: 1bp Report only those alignments that do not overlap with file(s) B False Write the original A entry _once_ if _any_ overlaps found in B. False For each entry in A, report the number of overlaps with B. True When using BAM input (-abam), write output as BED instead of BAM. False For coordinate sorted input file the more efficient sweeping algorithm is enabled. False Print the header from the A file prior to results False
Step 4: Cut Cut columns c4,c7 Delimited by Tab From Output dataset 'output' from step 3
Step 5: Column join Tabular files Output dataset 'out_file1' from step 4 Identifier column 1 Number of header lines in each input file 0 Add column name to header False Fill character . Additional datasets to create Nothing selected.

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652da10781874d97b538fa33461e08ea

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