Skip to content

Commit

Permalink
Merge branch 'v2.0.2_zhang' of gitlab.rc.uab.edu:test-curtish/transit…
Browse files Browse the repository at this point in the history 
… into v2.0.2_zhang

Conflicts:
	README.md
  • Loading branch information
@rusalkaguy
rusalkaguy committed Oct 4, 2019
2 parents 8f8fee3 + 5723264 commit 3690f0a
Showing 1 changed file with 18 additions and 0 deletions.
18 changes: 18 additions & 0 deletions README.md
View file
Original file line number Diff line number Diff line change
Expand Up @@ -42,6 +42,24 @@ This version should only be used for processing .fastq files into .wig files.

Once you have your .wig files, please **conduct statistical analyses with the latest avaiable version of TRANSIT**.

## v2.0.2_zhang: hardcoded alternate set of adapter/const sequences.

The easiest way to install/run this is to use Anaconda3 to create a transit enviroment, including all dependencies,
```
conda create -n transit233 -c bioconda transit=2.3.3 bwa
```

Then git clone this branch of this repository
```
git clone https://github.com/rusalkaguy/transit.git transit_v2.0.2_zhang
cd transit_v2.0.2_zhang
git checkout v2.0.2_zhang
```

Finally, activate the environment, but then run the cloned TRANIST/TPP (```./transit_v2.0.2_zhang/src/tpp.py ...```)

This version should only be used for processing .fastq files into .wig files. Once you have your .wig files, please conduct statistical analyses with the latest avaiable version of TRANSIT.


# Welcome

Expand Down

0 comments on commit 3690f0a

Please sign in to comment.