SRCP statistics
SRCP specifications
Information
Unique identifier | OMICS_24243 |
---|---|
Name | SRCP |
Alternative name | Sequence Read Classification Pipeline |
Software type | Pipeline/Workflow |
Interface | Command line interface |
Restrictions to use | None |
Output data | A graph (along with data and statistics) illustrating the composition of the query sequence set. |
Operating system | Unix/Linux |
Computer skills | Advanced |
Version | 1.0 |
Stability | Stable |
Maintained | Yes |
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Maintainer
- person_outline Daniel Peterson <>
Publication for Sequence Read Classification Pipeline
library_books
An automated, high-throughput sequence read classification pipeline for preliminary genome characterization.
2008 Anal Biochem
PMID: 17868636
DOI: 10.1016/j.ab.2007.08.008
SRCP in publication
library_books
Characterization of the genome of bald cypress
PMCID: 3228858
PMID: 22077969
DOI: 10.1186/1471-2164-12-553
[…] has a mean repetition frequency of 2054, 80% of elements in the component have iteration frequencies between 205.4 and 20,540., 743 high-quality hr capillary sequence reads were analyzed using the sequence read classification pipeline (srcp) of chouvarine et al. []. as shown in figure , the vast majority of reads (72.49%) showed no obvious (s' ≥ 60) homology to previously characterized repeat […]
SRCP institution(s)
Mississippi Genome Exploration Laboratory, Mississippi State University, Mississippi State, MS, USA; Department of Plant & Soil Sciences, Mississippi State University, Mississippi State, MS, USA; Department of Computer Science & Engineering, Mississippi State University, Mississippi State, MS, USA; Institute for Digital Biology, Mississippi State University, Mississippi State, MS, USA
SRCP funding source(s)
Supported by Grant DBI-0421717 from the National Science Foundation, Grant 2006-34506-17290 from the U.S. Department of Agriculture Cooperative State Research, Education, and Extension Service, and a grant from the Mississippi Corn Promotion Board.
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