Help in understanding output

[deeksha bhartiya]

Hi

I have two sets of intervals and I am trying to understand the output generated by genometricorr. Since these are intervals I am trying to understand the jaccard test.

Please help me understand the difference between these results:

chr1

Query population : 408

Reference population : 14

Relative Ks p−value : 0.00281864

Relative ecdf deviation area : 0.0192995

Relative ecdf area correlation : −0.0769643

Relative ecdf deviation area p−value : 0.00690000000000002

Scaled Absolute min. distance p−value : 0.3696

Scaled Absolute min. lower tail : FALSE

Jaccard Measure p−value : 0.2478

Jaccard Measure lower tail : FALSE

Projection test p−value : 0.179118

Projection test lower tail : FALSE

Projection test observed to expected ratio : 0

chr8

Query population : 255

Reference population : 334

Relative Ks p−value : 0.308729

Relative ecdf deviation area : 0.010144

Relative ecdf area correlation : 0.0324912

Relative ecdf deviation area p−value : 0.375

Scaled Absolute min. distance p−value : 2e−04

Scaled Absolute min. lower tail : TRUE

Jaccard Measure p−value : 0.1996

Jaccard Measure lower tail : TRUE

Projection test p−value : 0.434394

Projection test lower tail : TRUE

Projection test observed to expected ratio : 0.679139

chr20

Query population : 76

Reference population : 3

Relative Ks p−value : 0.365426

Relative ecdf deviation area : 0.0190346

Relative ecdf area correlation : 0.0411906

Relative ecdf deviation area p−value : 0.3544

Scaled Absolute min. distance p−value : 0.1423

Scaled Absolute min. lower tail : TRUE

Jaccard Measure p−value : 0.0148

Jaccard Measure lower tail : FALSE

Projection test p−value : 0.00455049

Projection test lower tail : FALSE

Projection test observed to expected ratio : 0

Thanks

[Alexander Favorov]

It looks like there is no correlation or there are not enough
statistics to catch if. Maybe it is better to use do.awhole=TRUE and
awole.only=TRUE command options to avoid per-chromosome statistics and
look only at whole-genome results.

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[deeksha bhartiya]

Dear Sasha

I am attaching one of my complete result file. Please help me understand that. Also to study enrichment in two intervals, what kind of results should I expect? When can I tell from results that this is good correlation.

Thanks in advance

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Thanks and Regards

Dr. Deeksha Bhartiya