Mercurial > repos > yhoogstrate > edger_with_design_matrix

changeset 50:228867d5283b draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author yhoogstrate
date Tue, 03 Jun 2014 05:30:13 -0400
parents 35073b9cb836
children ca24a51fa144
files test-data/GSE22260/GSE22260_design_matrix_hg19_subset.txt test-data/GSE51403/GSE51403_design_matrix.txt test-data/GSE51403/GSE51403_design_matrix_full_depth.txt test-data/GSE51403/GSE51403_design_matrix_subsampled.txt
diffstat 4 files changed, 176 insertions(+), 176 deletions(-) [+]
line wrap: on
line diff
--- a/test-data/GSE22260/GSE22260_design_matrix_hg19_subset.txt	Tue Jun 03 05:18:17 2014 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,161 +0,0 @@
-2012-562.subsamp.10M	Control
-2012-562.subsamp.15M	Control
-2012-562.subsamp.2.5M	Control
-2012-562.subsamp.20M	Control
-2012-562.subsamp.25M	Control
-2012-562.subsamp.30M	Control
-2012-562.subsamp.5M	Control
-2012-563.subsamp.10M	Control
-2012-563.subsamp.15M	Control
-2012-563.subsamp.2.5M	Control
-2012-563.subsamp.20M	Control
-2012-563.subsamp.25M	Control
-2012-563.subsamp.30M	Control
-2012-563.subsamp.5M	Control
-2012-564.subsamp.10M	Control
-2012-564.subsamp.15M	Control
-2012-564.subsamp.2.5M	Control
-2012-564.subsamp.20M	Control
-2012-564.subsamp.25M	Control
-2012-564.subsamp.30M	Control
-2012-564.subsamp.5M	Control
-2012-565.subsamp.10M	Control
-2012-565.subsamp.15M	Control
-2012-565.subsamp.2.5M	Control
-2012-565.subsamp.20M	Control
-2012-565.subsamp.25M	Control
-2012-565.subsamp.30M	Control
-2012-565.subsamp.5M	Control
-2012-566.subsamp.10M	Control
-2012-566.subsamp.15M	Control
-2012-566.subsamp.2.5M	Control
-2012-566.subsamp.20M	Control
-2012-566.subsamp.25M	Control
-2012-566.subsamp.30M	Control
-2012-566.subsamp.5M	Control
-2012-567.subsamp.10M	Unknown
-2012-567.subsamp.15M	Unknown
-2012-567.subsamp.2.5M	Unknown
-2012-567.subsamp.20M	Unknown
-2012-567.subsamp.25M	Unknown
-2012-567.subsamp.30M	Unknown
-2012-567.subsamp.5M	Unknown
-2012-568.subsamp.10M	Control
-2012-568.subsamp.15M	Control
-2012-568.subsamp.2.5M	Control
-2012-568.subsamp.20M	Control
-2012-568.subsamp.25M	Control
-2012-568.subsamp.30M	Control
-2012-568.subsamp.5M	Control
-2012-569.subsamp.10M	Control
-2012-569.subsamp.15M	Control
-2012-569.subsamp.2.5M	Control
-2012-569.subsamp.20M	Control
-2012-569.subsamp.25M	Control
-2012-569.subsamp.30M	Control
-2012-569.subsamp.5M	Control
-2012-570.subsamp.10M	E2
-2012-570.subsamp.15M	E2
-2012-570.subsamp.2.5M	E2
-2012-570.subsamp.20M	E2
-2012-570.subsamp.25M	E2
-2012-570.subsamp.30M	E2
-2012-570.subsamp.5M	E2
-2012-571.subsamp.10M	E2
-2012-571.subsamp.15M	E2
-2012-571.subsamp.2.5M	E2
-2012-571.subsamp.20M	E2
-2012-571.subsamp.25M	E2
-2012-571.subsamp.30M	E2
-2012-571.subsamp.5M	E2
-2012-572.subsamp.10M	E2
-2012-572.subsamp.15M	E2
-2012-572.subsamp.2.5M	E2
-2012-572.subsamp.20M	E2
-2012-572.subsamp.25M	E2
-2012-572.subsamp.30M	E2
-2012-572.subsamp.5M	E2
-2012-573.subsamp.10M	Unknown
-2012-573.subsamp.15M	Unknown
-2012-573.subsamp.2.5M	Unknown
-2012-573.subsamp.20M	Unknown
-2012-573.subsamp.25M	Unknown
-2012-573.subsamp.30M	Unknown
-2012-573.subsamp.5M	Unknown
-2012-574.subsamp.10M	E2
-2012-574.subsamp.15M	E2
-2012-574.subsamp.2.5M	E2
-2012-574.subsamp.20M	E2
-2012-574.subsamp.25M	E2
-2012-574.subsamp.30M	E2
-2012-574.subsamp.5M	E2
-2012-575.subsamp.10M	E2
-2012-575.subsamp.15M	E2
-2012-575.subsamp.2.5M	E2
-2012-575.subsamp.20M	E2
-2012-575.subsamp.25M	E2
-2012-575.subsamp.30M	E2
-2012-575.subsamp.5M	E2
-2012-576.subsamp.10M	E2
-2012-576.subsamp.15M	E2
-2012-576.subsamp.2.5M	E2
-2012-576.subsamp.20M	E2
-2012-576.subsamp.25M	E2
-2012-576.subsamp.30M	E2
-2012-576.subsamp.5M	E2
-2012-577.subsamp.10M	E2
-2012-577.subsamp.15M	E2
-2012-577.subsamp.2.5M	E2
-2012-577.subsamp.20M	E2
-2012-577.subsamp.25M	E2
-2012-577.subsamp.30M	E2
-2012-577.subsamp.5M	E2
-2012-578.subsamp.10M	Unknown
-2012-578.subsamp.15M	Unknown
-2012-578.subsamp.2.5M	Unknown
-2012-578.subsamp.20M	Unknown
-2012-578.subsamp.25M	Unknown
-2012-578.subsamp.30M	Unknown
-2012-578.subsamp.5M	Unknown
-2012-579.subsamp.10M	Unknown
-2012-579.subsamp.15M	Unknown
-2012-579.subsamp.2.5M	Unknown
-2012-579.subsamp.20M	Unknown
-2012-579.subsamp.25M	Unknown
-2012-579.subsamp.30M	Unknown
-2012-579.subsamp.5M	Unknown
-2012-580.subsamp.10M	Unknown
-2012-580.subsamp.15M	Unknown
-2012-580.subsamp.2.5M	Unknown
-2012-580.subsamp.20M	Unknown
-2012-580.subsamp.25M	Unknown
-2012-580.subsamp.30M	Unknown
-2012-580.subsamp.5M	Unknown
-2012-581.subsamp.10M	Unknown
-2012-581.subsamp.15M	Unknown
-2012-581.subsamp.2.5M	Unknown
-2012-581.subsamp.20M	Unknown
-2012-581.subsamp.25M	Unknown
-2012-581.subsamp.30M	Unknown
-2012-581.subsamp.5M	Unknown
-2012-582.subsamp.10M	Unknown
-2012-582.subsamp.15M	Unknown
-2012-582.subsamp.2.5M	Unknown
-2012-582.subsamp.20M	Unknown
-2012-582.subsamp.25M	Unknown
-2012-582.subsamp.30M	Unknown
-2012-582.subsamp.5M	Unknown
-2012-583.subsamp.10M	Unknown
-2012-583.subsamp.15M	Unknown
-2012-583.subsamp.2.5M	Unknown
-2012-583.subsamp.20M	Unknown
-2012-583.subsamp.25M	Unknown
-2012-583.subsamp.30M	Unknown
-2012-583.subsamp.5M	Unknown
-2012-584.subsamp.10M	Unknown
-2012-584.subsamp.15M	Unknown
-2012-584.subsamp.2.5M	Unknown
-2012-584.subsamp.20M	Unknown
-2012-584.subsamp.25M	Unknown
-2012-584.subsamp.30M	Unknown
-2012-584.subsamp.5M	Unknown
--- a/test-data/GSE51403/GSE51403_design_matrix.txt	Tue Jun 03 05:18:17 2014 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,15 +0,0 @@
-sample-name	Treatment
-GSM1244816: Control_Rep1	Control
-GSM1244817: Control_Rep2	Control
-GSM1244818: Control_Rep3	Control
-GSM1244819: Control_Rep4	Control
-GSM1244820: Control_Rep5	Control
-GSM1244821: Control_Rep6	Control
-GSM1244822: Control_Rep7	Control
-GSM1244809: E2_Rep1	E2
-GSM1244810: E2_Rep2	E2
-GSM1244811: E2_Rep3	E2
-GSM1244812: E2_Rep4	E2
-GSM1244813: E2_Rep5	E2
-GSM1244814: E2_Rep6	E2
-GSM1244815: E2_Rep7	E2
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/GSE51403/GSE51403_design_matrix_full_depth.txt	Tue Jun 03 05:30:13 2014 -0400
@@ -0,0 +1,15 @@
+sample-name	Treatment
+GSM1244816: Control_Rep1	Control
+GSM1244817: Control_Rep2	Control
+GSM1244818: Control_Rep3	Control
+GSM1244819: Control_Rep4	Control
+GSM1244820: Control_Rep5	Control
+GSM1244821: Control_Rep6	Control
+GSM1244822: Control_Rep7	Control
+GSM1244809: E2_Rep1	E2
+GSM1244810: E2_Rep2	E2
+GSM1244811: E2_Rep3	E2
+GSM1244812: E2_Rep4	E2
+GSM1244813: E2_Rep5	E2
+GSM1244814: E2_Rep6	E2
+GSM1244815: E2_Rep7	E2
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/GSE51403/GSE51403_design_matrix_subsampled.txt	Tue Jun 03 05:30:13 2014 -0400
@@ -0,0 +1,161 @@
+2012-562.subsamp.10M	Control
+2012-562.subsamp.15M	Control
+2012-562.subsamp.2.5M	Control
+2012-562.subsamp.20M	Control
+2012-562.subsamp.25M	Control
+2012-562.subsamp.30M	Control
+2012-562.subsamp.5M	Control
+2012-563.subsamp.10M	Control
+2012-563.subsamp.15M	Control
+2012-563.subsamp.2.5M	Control
+2012-563.subsamp.20M	Control
+2012-563.subsamp.25M	Control
+2012-563.subsamp.30M	Control
+2012-563.subsamp.5M	Control
+2012-564.subsamp.10M	Control
+2012-564.subsamp.15M	Control
+2012-564.subsamp.2.5M	Control
+2012-564.subsamp.20M	Control
+2012-564.subsamp.25M	Control
+2012-564.subsamp.30M	Control
+2012-564.subsamp.5M	Control
+2012-565.subsamp.10M	Control
+2012-565.subsamp.15M	Control
+2012-565.subsamp.2.5M	Control
+2012-565.subsamp.20M	Control
+2012-565.subsamp.25M	Control
+2012-565.subsamp.30M	Control
+2012-565.subsamp.5M	Control
+2012-566.subsamp.10M	Control
+2012-566.subsamp.15M	Control
+2012-566.subsamp.2.5M	Control
+2012-566.subsamp.20M	Control
+2012-566.subsamp.25M	Control
+2012-566.subsamp.30M	Control
+2012-566.subsamp.5M	Control
+2012-567.subsamp.10M	Unknown
+2012-567.subsamp.15M	Unknown
+2012-567.subsamp.2.5M	Unknown
+2012-567.subsamp.20M	Unknown
+2012-567.subsamp.25M	Unknown
+2012-567.subsamp.30M	Unknown
+2012-567.subsamp.5M	Unknown
+2012-568.subsamp.10M	Control
+2012-568.subsamp.15M	Control
+2012-568.subsamp.2.5M	Control
+2012-568.subsamp.20M	Control
+2012-568.subsamp.25M	Control
+2012-568.subsamp.30M	Control
+2012-568.subsamp.5M	Control
+2012-569.subsamp.10M	Control
+2012-569.subsamp.15M	Control
+2012-569.subsamp.2.5M	Control
+2012-569.subsamp.20M	Control
+2012-569.subsamp.25M	Control
+2012-569.subsamp.30M	Control
+2012-569.subsamp.5M	Control
+2012-570.subsamp.10M	E2
+2012-570.subsamp.15M	E2
+2012-570.subsamp.2.5M	E2
+2012-570.subsamp.20M	E2
+2012-570.subsamp.25M	E2
+2012-570.subsamp.30M	E2
+2012-570.subsamp.5M	E2
+2012-571.subsamp.10M	E2
+2012-571.subsamp.15M	E2
+2012-571.subsamp.2.5M	E2
+2012-571.subsamp.20M	E2
+2012-571.subsamp.25M	E2
+2012-571.subsamp.30M	E2
+2012-571.subsamp.5M	E2
+2012-572.subsamp.10M	E2
+2012-572.subsamp.15M	E2
+2012-572.subsamp.2.5M	E2
+2012-572.subsamp.20M	E2
+2012-572.subsamp.25M	E2
+2012-572.subsamp.30M	E2
+2012-572.subsamp.5M	E2
+2012-573.subsamp.10M	Unknown
+2012-573.subsamp.15M	Unknown
+2012-573.subsamp.2.5M	Unknown
+2012-573.subsamp.20M	Unknown
+2012-573.subsamp.25M	Unknown
+2012-573.subsamp.30M	Unknown
+2012-573.subsamp.5M	Unknown
+2012-574.subsamp.10M	E2
+2012-574.subsamp.15M	E2
+2012-574.subsamp.2.5M	E2
+2012-574.subsamp.20M	E2
+2012-574.subsamp.25M	E2
+2012-574.subsamp.30M	E2
+2012-574.subsamp.5M	E2
+2012-575.subsamp.10M	E2
+2012-575.subsamp.15M	E2
+2012-575.subsamp.2.5M	E2
+2012-575.subsamp.20M	E2
+2012-575.subsamp.25M	E2
+2012-575.subsamp.30M	E2
+2012-575.subsamp.5M	E2
+2012-576.subsamp.10M	E2
+2012-576.subsamp.15M	E2
+2012-576.subsamp.2.5M	E2
+2012-576.subsamp.20M	E2
+2012-576.subsamp.25M	E2
+2012-576.subsamp.30M	E2
+2012-576.subsamp.5M	E2
+2012-577.subsamp.10M	E2
+2012-577.subsamp.15M	E2
+2012-577.subsamp.2.5M	E2
+2012-577.subsamp.20M	E2
+2012-577.subsamp.25M	E2
+2012-577.subsamp.30M	E2
+2012-577.subsamp.5M	E2
+2012-578.subsamp.10M	Unknown
+2012-578.subsamp.15M	Unknown
+2012-578.subsamp.2.5M	Unknown
+2012-578.subsamp.20M	Unknown
+2012-578.subsamp.25M	Unknown
+2012-578.subsamp.30M	Unknown
+2012-578.subsamp.5M	Unknown
+2012-579.subsamp.10M	Unknown
+2012-579.subsamp.15M	Unknown
+2012-579.subsamp.2.5M	Unknown
+2012-579.subsamp.20M	Unknown
+2012-579.subsamp.25M	Unknown
+2012-579.subsamp.30M	Unknown
+2012-579.subsamp.5M	Unknown
+2012-580.subsamp.10M	Unknown
+2012-580.subsamp.15M	Unknown
+2012-580.subsamp.2.5M	Unknown
+2012-580.subsamp.20M	Unknown
+2012-580.subsamp.25M	Unknown
+2012-580.subsamp.30M	Unknown
+2012-580.subsamp.5M	Unknown
+2012-581.subsamp.10M	Unknown
+2012-581.subsamp.15M	Unknown
+2012-581.subsamp.2.5M	Unknown
+2012-581.subsamp.20M	Unknown
+2012-581.subsamp.25M	Unknown
+2012-581.subsamp.30M	Unknown
+2012-581.subsamp.5M	Unknown
+2012-582.subsamp.10M	Unknown
+2012-582.subsamp.15M	Unknown
+2012-582.subsamp.2.5M	Unknown
+2012-582.subsamp.20M	Unknown
+2012-582.subsamp.25M	Unknown
+2012-582.subsamp.30M	Unknown
+2012-582.subsamp.5M	Unknown
+2012-583.subsamp.10M	Unknown
+2012-583.subsamp.15M	Unknown
+2012-583.subsamp.2.5M	Unknown
+2012-583.subsamp.20M	Unknown
+2012-583.subsamp.25M	Unknown
+2012-583.subsamp.30M	Unknown
+2012-583.subsamp.5M	Unknown
+2012-584.subsamp.10M	Unknown
+2012-584.subsamp.15M	Unknown
+2012-584.subsamp.2.5M	Unknown
+2012-584.subsamp.20M	Unknown
+2012-584.subsamp.25M	Unknown
+2012-584.subsamp.30M	Unknown
+2012-584.subsamp.5M	Unknown