Main logo
?
tutorial arrow
×
Create your own tool library
Bookmark tools and put favorites into folders to find them easily.

SAPAS | Systematically evaluating interfaces for RNA-seq analysis from a life scientist perspective

A pipeline for RNA-seq method to research polyA. SAPAS performs a systematic search and evaluation of protocols for typical steps to investigate to what extent these can indeed facilitate RNA-seq data analysis. 29 open-source interfaces and 6 of the more widely used interfaces were evaluated in detail. SAPAS processes the sequencing result using SAPAS method, including quality control, mapping to genome using bowtie, generating cleverage sites, internal priming, clustering cleverage sites.

User report

tutorial arrow
×
Vote up tools and offer feedback
Give value to tools and make your expertise visible
Give your feedback on this tool
Sign up for free to join and share with the community

0 user reviews

star_border star_border star_border star_border star_border
star star star star star

0 user reviews

star_border star_border star_border star_border star_border
star star star star star

No review has been posted.

SAPAS forum

tutorial arrow
×
Communicate with other users
Participate in the forum to get support for using tools. Ask questions about technical specifications.
Take part in the discussion
Sign up for free to ask question and share your advices

No open topic.

SAPAS classification

SAPAS specifications

Unique identifier:
OMICS_01413
Interface:
Command line interface
Operating system:
Unix/Linux
Computer skills:
Advanced
Maintained:
Yes
Software type:
Pipeline/Workflow
Restrictions to use:
None
Programming languages:
Perl
Stability:
Beta

SAPAS distribution

versioning

tutorial arrow
×
Upload and version your source code
Get a DOI for each update to improve tool traceability. Archive your releases so the community can easily visualize progress on your work.
Facilitate your tool traceability
Sign up for free to upload your code and get a DOI

No versioning.

download

Credits

tutorial arrow
×
Promote your skills
Define all the tasks you managed and assign your profile the appropriate badges. Become an active member.
Promote your work
Sign up for free to badge your contributorship

Publications

Institution(s)

Institute of Medical Biostatistics, Epidemiology and Informatics, University Medical Center Johannes Gutenberg University Mainz, Mainz, Germany; Statistical Bioinformatics, Bioinformatics Core Facility, University Medical Center Johannes Gutenberg, Mainz, Germany; Molecular Cardiology Genomics and System Biology group, Department of General and Interventional Cardiology, University Heart Center Hamburg-Eppendorf, Hamburg, Germany; Division Biostatistics and Bioinformatics, University Medical Center Johannes Gutenberg University Mainz, Mainz, Germany; Institute of Medical Biostatistics, Epidemiology and Informatics, University Medical Center Johannes Gutenberg, Mainz, Germany

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.