Customa mappability files

[GoogleCodeExporter]

1) What operating system are you using?
   Linux (debian)

2) What error message was displayed?

Processing chrMb.out .......
    chrM .......
Loading align count data from mappability/koe/temp.wig
    Processing chr1
Segmentation fault   

3) What was the exact command you used that resulted in the error?
> generateAlignability(
+   mapdir="mappability/koe/",                            # mappability 
directory from unpacked mappability files
+   twoBitFile="my.2bit",                                     # path to 
downloaded genome build file in .2bit format
+   outdir="align_fold/",                                         # directory 
for processed files, used later in analysis
+   athresh=4,                                                    # number of 
hits per read allowed during mapping process
+   extension=300,                                                # average 
fragment library length
+ );

4) Please copy and paste any additional screen output that resulted from
running the command

Like many other, would be keen to know how to generate mappability files. What 
I am able to find from web, your progress concerning this matter is pathetic. 
Other researches have been asking this for months, but still no progress...

Moreover, there are no proper help given how to construct custom mappability 
files. Would appreciate a lot if you could do this also.

Original issue reported on code.google.com by kankaine...@gmail.com on 14 Mar 2013 at 11:36

[GoogleCodeExporter]

Don't confuse between Mappability and Alignability.
You can find an answer to this question in Issue #47.

Hope it helps,
Fabien Pichon

Original comment by fabien.p...@gmail.com on 27 Nov 2013 at 9:53