Mountain View
biomedical and healthCAre Data Discovery Index Ecosystem
help Advanced Search
Title: Supporting materials and software for "GenomeTester4: a toolkit for performing basic set operations - union, intersection and complement on k-mer lists"      
dateReleased:
11-22-2015
privacy:
not applicable
aggregation:
instance of dataset
dateCreated:
11-22-2015
refinement:
curated
ID:
doi:10.5524/100178
creators:
Kaplinski, Lauris
Lepamets, Maarja
Remm, Maido
availability:
available
types:
sequence
description:
K-mer-based methods of genome analysis have attracted great interest because they do not require genome assembly and can be performed directly on sequencing reads. Many analysis tasks require one to compare k-mer lists from different sequences to find words that are either unique to a specific sequence or common to many sequences. However, no stand-alone k-mer analysis tool currently allows one to perform these algebraic set operations. We have developed the GenomeTester4 toolkit, which contains a novel tool GListCompare for performing union, intersection and complement (difference) set operations on k-mer lists. We provide examples of how these general operations can be combined to solve a variety of biological analysis tasks.
accessURL: https://doi.org/10.5524/100178
storedIn:
GigaScience Database
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
GigaDB
homePage: http://gigadb.org/
ID:
SCR:006565
name:
Giga Science Database

Feedback?

If you are having problems using our tools, or if you would just like to send us some feedback, please post your questions on GitHub.