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

SSPACE

A stand-alone program for scaffolding pre-assembled contigs using NGS paired-read data. It is unique in offering the possibility to manually control the scaffolding process. By using the distance information of paired-end and/or matepair data, SSPACE is able to assess the order, distance and orientation of your contigs and combine them into scaffolds.

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

0 user reviews

No review has been posted.

SSPACE 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.

SSPACE classification

SSPACE specifications

Software type:
Package/Module
Restrictions to use:
None
Input format:
FASTA, FASTQ
Output format:
FASTA
Programming languages:
Perl
Stability:
Stable
Interface:
Command line interface
Input data:
Pre-assembled contig sequence data, NGS paired-read data
Output data:
Final scaffolds
Operating system:
Unix/Linux
Computer skills:
Advanced
Maintained:
Yes

SSPACE 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)

BaseClear BV; Einsteinweg, Leiden, Netherlands

Link to literature

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