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The "count" command computes average feature density over a specified window size across the genome. Common usages include computing coverage for alignment files and counting hits in Chip-seq experiments.
Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> htseq_count
Use testfile.sam from the directory above as test input.
- Default parameters only, no further configuration needed.
Tool Source for App