Mercurial > repos > iuc > hicexplorer_hictraintadclassifier

annotate test-data/cHi-C/chicQualityControl/new_referencepoints.bed_report @ 0:2ddd36e02c20 draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
author iuc
date Wed, 18 Oct 2023 11:13:37 +0000
parents
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
1 # Created with chicQualityControl version 3.7.2
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
2 # QC report for matrices: 0_matrix.cool 1_matrix.cool
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
3 #Sparsity threshold for rejection: sparsity <= 0.05 are rejected.
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
4
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
5 Number of reference points: 43
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
6 Number of accepted reference points: 35
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
7 Number of rejected reference points: 8
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
8 Number of faulty reference points: 0
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
9
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
10
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
11 A faulty reference point is caused by the non-presence of the chromosome in one of the given matrices.
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
12 It can also be caused by the non-presence of valid Hi-C reads in a region, especially at the chromosome ends.
2ddd36e02c20 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 07802a6bd441d9da888cfb8283f8c2135704f7c9
iuc
parents:
diff changeset
13 Please check the results of hicInfo to validate this for your data.