Mercurial > repos > bgruening > hicexplorer_hicdetectloops
annotate test-data/cHi-C/chicQualityControl/new_referencepoints.bed_report @ 6:c3f9037423bd draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 2a0943e78bdc8ebb13f181399206a9eea37ed78f"
author | iuc |
---|---|
date | Tue, 16 Mar 2021 15:32:15 +0000 |
parents | 1119cdd14ddb |
children | 0410b6aada45 |
rev | line source |
---|---|
6
c3f9037423bd
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 2a0943e78bdc8ebb13f181399206a9eea37ed78f"
iuc
parents:
3
diff
changeset
|
1 # Created with chicQualityControl version 3.6 |
3
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
2 # QC report for matrices: 0_matrix.cool 1_matrix.cool |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
3 #Sparsity threshold for rejection: sparsity <= 0.05 are rejected. |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
4 |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
5 Number of reference points: 43 |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
6 Number of accepted reference points: 35 |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
7 Number of rejected reference points: 8 |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
8 Number of faulty reference points: 0 |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
9 |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
10 |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
11 A faulty reference point is caused by the non-presence of the chromosome in one of the given matrices. |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
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. |
1119cdd14ddb
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/hicexplorer commit 3d3fe0c7636592f01981d491dc8ff44bb55c1750"
iuc
parents:
diff
changeset
|
13 Please check the results of hicInfo to validate this for your data. |