التفاصيل البيبلوغرافية
| العنوان: |
Comb-p: software for combining, analyzing, grouping and correcting spatially correlated P-values. |
| المؤلفون: |
Pedersen, Brent S.1, Schwartz, David A.1, Yang, Ivana V.1, Kechris, Katerina J.1 |
| المصدر: |
Bioinformatics. Nov2012, Vol. 28 Issue 22, p2986-2988. 3p. |
| مصطلحات موضوعية: |
*PYTHON programming language, *LINEAR statistical models, *CHROMATIN, *METHYLATION, *SEQUENCE analysis |
| مستخلص: |
Summary: comb-p is a command-line tool and a python library that manipulates BED files of possibly irregularly spaced P-values and (1) calculates auto-correlation, (2) combines adjacent P-values, (3) performs false discovery adjustment, (4) finds regions of enrichment (i.e. series of adjacent low P-values) and (5) assigns significance to those regions. In addition, tools are provided for visualization and assessment. We provide validation and example uses on bisulfite-seq with P-values from Fisher’s exact test, tiled methylation probes using a linear model and Dam-ID for chromatin binding using moderated t-statistics. Because the library accepts input in a simple, standardized format and is unaffected by the origin of the P-values, it can be used for a wide variety of applications.Availability: comb-p is maintained under the BSD license. The documentation and implementation are available at https://github.com/brentp/combined-pvalues.ContactTest: bpederse@gmail.com [ABSTRACT FROM AUTHOR] |
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