Skip to content
GitLab
Explore
Sign in
Primary navigation
Search or go to…
Project
M
MeRIPSeq
Manage
Activity
Members
Labels
Plan
Wiki
Code
Merge requests
0
Repository
Branches
Commits
Tags
Repository graph
Compare revisions
Snippets
Build
Pipelines
Jobs
Pipeline schedules
Artifacts
Deploy
Releases
Container Registry
Operate
Environments
Analyze
Value stream analytics
Contributor analytics
CI/CD analytics
Repository analytics
Help
Help
Support
GitLab documentation
Compare GitLab plans
Community forum
Contribute to GitLab
Provide feedback
Keyboard shortcuts
?
Snippets
Groups
Projects
Show more breadcrumbs
hub
MeRIPSeq
Commits
a1d529e3
Commit
a1d529e3
authored
7 years ago
by
Christophe BECAVIN
Browse files
Options
Downloads
Patches
Plain Diff
Update README.txt
parent
9c6fa2f6
No related branches found
Branches containing commit
No related tags found
No related merge requests found
Changes
1
Hide whitespace changes
Inline
Side-by-side
Showing
1 changed file
README.txt
+3
-3
3 additions, 3 deletions
README.txt
with
3 additions
and
3 deletions
README.txt
+
3
−
3
View file @
a1d529e3
...
...
@@ -31,7 +31,7 @@ INSTALL first all dependencies: See INSTALL.txt
Run on every dataset:
WARNING - Steps 3 to 7 are run separately for each dataset
WARNING - They might take a ot of time to perform, so they can be parallelized on a cluster
WARNING - They might take a
l
ot of time to perform, so they can be parallelized on a cluster
3 - Trimming, mapping, BAM file filtering and quality control
4 - Calculate SeqDepth for peak detection techniques
5 - HTSeq - Count number of reads per genes
...
...
@@ -42,11 +42,11 @@ WARNING - They might take a ot of time to perform, so they can be parallelized o
Run only one time per project_name
8 - MultiQC for quality control
9 - finalize peak detection by filtering out "bad" peaks
10 - (Option
n
al) Annotate all peaks from all different techniques
10 - (Optional) Annotate all peaks from all different techniques
11 - Regroup peaks from all the detection techniques, annotate them, find overlap position with genes and referent MeRIP-Seq, CLIPSeq and TREW
Run on every dataset:
12 - HTSeq - Count number of reads in each methylation site
s
detected
12 - HTSeq - Count number of reads in each methylation site detected
13 - Perform differential methylation sites analysis in R
###################################################################################
\ No newline at end of file
This diff is collapsed.
Click to expand it.
Preview
0%
Try again
or
attach a new file
.
Cancel
You are about to add
0
people
to the discussion. Proceed with caution.
Finish editing this message first!
Save comment
Cancel
Please
register
or
sign in
to comment