Determine which parameters matter/should be added for peak callers of interest

[j-andrews7]

Many of the peak callers mentioned in #2 have a ton of parameters. Some matter, some don't. Making note of which ones are worth making available to the user and which should just use default settings will be important.

Pretty easy to adjust later, so we can throw the obvious ones up at first and go from there.

• MACS2
• PeakRanger - Actually has 3 different peak callers in it (ranger, ccat, bcp).
• MACS - Gonna have to check the command line for this one, can't even find the manual online anymore.
• SICER2 - This actually contains another variant of their peakcaller called RECOGNICER too.

[j-andrews7]

#13 took care of this for MACS2.