DASHR sncRNA loci table 

File name: peaks_export.csv
Release date: 09/01/2017
Version: DASHR release 2.0 

#  Copyright (c) 2015 University of Pennsylvania

#  Permission is hereby granted, free of charge, to any person obtaining a
#  copy of this software and associated documentation files (the "Software"),
#  to deal in the Software without restriction, including without limitation
#  the rights to use, copy, modify, merge, publish, distribute, sublicense,
#  and/or sell copies of the Software, and to permit persons to whom the
#  Software is furnished to do so, subject to the following conditions:

#  The above copyright notice and this permission notice shall be included in
#  all copies or substantial portions of the Software.

#  THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS
#  OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
#  FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
#  AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
#  LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
#  FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
#  DEALINGS IN THE SOFTWARE.

Description - This file contains all detected sncRNA loci and their features across all tissues/cell types. 

Descriptions of the columns:
1.	peakChr	Reference sequence chromosome
2.	peakStrand	strand
3.	annotID	small RNA gene ID
4.	overlapIds.mRNA	ID of overlapping mRNA genes
5.	overlapIds.lncRNA	ID of overlapping lncRNA genes
6.	peakChrStart	loci start position
7.	peakChrEnd	loci end position
8.	peakNormalizedEntropy5p	Normalized entropy for 5' read ends
9.	peakExpressionValue	Expression value (raw number of reads)
10.	peakProportionOfReadsAtMostCommon5pPosition	proportion of reads starting at most common 5' read end position
11.	peakProportionOfReadsAtMostCommon3pPosition	proportion of reads ending at most common 5' read end position
12.	peakMostCommon5pPosition	most common 5' read end position
13.	peakMostCommon3pPosition	most common 3' read end position
14.	genomicPartition.mRNA	overlapping mRNA element
15.	genomicPartition.lncRNA	overlapping lncRNA element
16.	repeat_family	repeat familty
17.	repeat_id	repead element iD
18.	peakID	DASHR peak ID
19.	peakRPM	Expression (reads per million)
20.	annotRNAclass	sncRNA class
21.	consMean0	evolutionary conservation of sncRNA loci (phastCons)
22.	tissue	tissue/cell type or cell line
23.	tissueSpecificity	tissue specificity score
24.	peakNormalizedEntropy3p	Normalized entropy for 3' read ends
25.	peakExprPercentile	Expression value percentile
26.	length	sncRNA loci length
27.	peakEntropy5pReadEnd	5' read end position entropy (un-normalized)
28.	peakMaxEntropy5p	maximum entropy 5' read end
29.	peakEntropy3pReadEnd	3' read end position entropy (un-normalized)
30.	peakMaxEntropy3p	maximum entropy 3' read end
31.	beforePeakReadCnt	background coverage (raw read cnt)
32.	peakFoldChange	peak strength (ratio of 5' read ends to the background)
33.	annotChr	chromosome of annotated sncRNA gene or mature product
34.	annotChrStart	start position for annotated sncRNA gene or mature product
35.	annotChrEnd	end position for annotated sncRNA gene or mature product
36.	annotStrand	strand of annotated sncRNA gene or mature product
37.	annotOverlap	overlap as a fraction of annotated sncRNA gene or mature product
38.	peakOverlap	overlap as a fraction of sncRNA loci
39.	consMin	minimum conservation value along sncRNA loci (phastCons)
40.	consMax	maximum conservation value along sncRNA loci (phastCons)
41.	partitionChr.mRNA	mRNA element chromosome
42.	partitionStart.mRNA	mRNA element start position
43.	partitionEnd.mRNA	mRNA element end position
44.	partitionStrand.mRNA	mRNA element strand
45.	partitionBpOverlap.mRNA	overalp size (number of base pairs) between sncRNA loci and mRNA element
46.	partitionChr.lncRNA	lncRNA element chromosome
47.	partitionStart.lncRNA	lncRNA element start position
48.	partitionEnd.lncRNA	lncRNA element end position
49.	partitionStrand.lncRNA	lncRNA element strand
50.	partitionBpOverlap.lncRNA	overalp size (number of base pairs) between sncRNA loci and mRNA element
51.	numRepeatOverlaps	number of overlapping repeat elements
52.	repeatChr	chromosome for repeat elements
53.	repeatStart	repeat element start position(s)
54.	repeatEnd	repeat element end position(s)
55.	repeatStrand	repeat element strand
56.	repeatBpOverlap	overlap size (number of base pairs) between sncRNA loci and repeat element