Skip to content
GitLab
Projects
Groups
Snippets
Help
Loading...
Help
Help
Support
Community forum
Keyboard shortcuts
?
Submit feedback
Sign in
Toggle navigation
N
ngs_tools
Project overview
Project overview
Details
Activity
Releases
Repository
Repository
Files
Commits
Branches
Tags
Contributors
Graph
Compare
Locked Files
Issues
15
Issues
15
List
Boards
Labels
Service Desk
Milestones
Requirements
Requirements
List
Security & Compliance
Security & Compliance
Dependency List
License Compliance
Analytics
Analytics
Insights
Issue
Repository
Value Stream
Members
Members
Collapse sidebar
Close sidebar
Activity
Graph
Create a new issue
Commits
Issue Boards
Open sidebar
bioinfo
ngs_tools
Commits
9fb37e32
Commit
9fb37e32
authored
Nov 02, 2018
by
Lena Hersemann
Browse files
Options
Browse Files
Download
Plain Diff
Merge remote-tracking branch 'origin/master'
parents
0c52bb1f
8f48376f
Changes
2
Hide whitespace changes
Inline
Side-by-side
Showing
2 changed files
with
3 additions
and
3 deletions
+3
-3
dge_workflow/collect_kallisto_data.R
dge_workflow/collect_kallisto_data.R
+2
-2
dge_workflow/limma/dge_limma.R
dge_workflow/limma/dge_limma.R
+1
-1
No files found.
dge_workflow/collect_kallisto_data.R
View file @
9fb37e32
...
...
@@ -28,8 +28,8 @@ devtools::source_url("https://raw.githubusercontent.com/holgerbrandl/datautils/v
load_pack
(
knitr
)
load_pack
(
stringr
)
load_pack
(
fda
)
l
ibrary
(
sleuth
)
l
ibrary
(
Rsamtools
)
l
oad_pack
(
sleuth
)
l
oad_pack
(
Rsamtools
)
load_pack
(
tximport
)
...
...
dge_workflow/limma/dge_limma.R
View file @
9fb37e32
...
...
@@ -47,7 +47,7 @@ assert(is.null(gene_info_file) || file.exists(gene_info_file), "invalid gene_inf
designFormula
=
opts
$
design
assert
(
str_detect
(
designFormula
,
"^condition.*"
))
## make sure that the condition comes before all batch factors
results_prefix
=
if
(
str_length
(
opts
$
out
)
>
0
)
opts
$
out
else
""
# used by add_prefix
if
(
!
is.null
(
opts
$
out
)){
results_prefix
=
opts
$
out
}
pcutoff
=
if
(
is.null
(
opts
$
pcutoff
))
NULL
else
as.numeric
(
opts
$
pcutoff
)
qcutoff
=
if
(
is.numeric
(
pcutoff
))
NULL
else
as.numeric
(
opts
$
qcutoff
)
...
...
Write
Preview
Markdown
is supported
0%
Try again
or
attach a new file
Attach a file
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Cancel
Please
register
or
sign in
to comment