From: PeakRanger: A cloud-enabled peak caller for ChIP-seq data
 | GUI | Command line parameters input | Data format | Customizable input | Automatic format detection | Species | Reusable configuration file | Wiggle file generation | No preprocessing | Parallel processing | Cloud parallel computing |
---|---|---|---|---|---|---|---|---|---|---|---|
PeakRanger | Â | Yes | Eland, Bowtie, SAM/BAM, BED | Yes | Â | All | Yes | Yes | Yes | Yes | Yes |
MACS | Â | Yes | Eland, Bowtie, SAM/BAM, BED | Â | Yes | All | Â | Yes | Yes | Â | Â |
FindPeaks | Yes | Yes | Eland, Bowtie, BED, GFF | Â | Â | All | Â | Yes | Â | Â | Â |
SPP | Â | Â | Eland, Bowtie, MAQ, Arachne | Â | Â | All | Â | Yes | Yes | Yes | Â |
QuEST | Â | Yes | Eland, Bowtie, Solexa, MAQ | Â | Â | All | Â | Yes | Â | Yes | Â |
GPS | Â | Yes | Eland, Bowtie, SAM, NovoAlign, BED | Â | Â | All | Â | Â | Yes | Â | Â |
Erange | Â | Yes | Eland, Bowtie, Blat, BED | Â | Â | All | Â | Yes | Â | Â | Â |
CisGenome | Yes | Yes | Eland, BED | Â | Â | All | Â | Yes | Â | Â | Â |
F-Seq | Â | Yes | BED | Â | Â | All | Â | Yes | Yes | Â | Â |
SISSRs | Â | Yes | BED | Â | Â | All | Â | Â | Yes | Â | Â |
PeakSeq | Â | Â | Eland | Â | Â | Human | Â | Yes | Â | Â | Â |