MaLTA protocols

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chevron_left Novel transcript quantification Known transcript quantification Reference-based transcriptome assembly chevron_right
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MaLTA specifications

Information


Unique identifier OMICS_07020
Name MaLTA
Software type Package/Module
Interface Command line interface
Restrictions to use None
Biological technology Life Technologies
Operating system Unix/Linux
Programming languages C++
Computer skills Advanced
Maintained Yes

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Maintainer


  • person_outline Serghei Mangul <>

Publication for MaLTA

MaLTA in pipeline

2015
PMCID: 4619414
PMID: 26499887
DOI: 10.1186/s12864-015-2062-7

[…] sample. in addition to cufflinks, there are several other softwares such as isoem that can be used to infer isoform and gene expression levels from high-throughput transcriptome sequencing [, ], and malta [] that can be used to transcriptome assembly and quantification from ion torrent rna-seq data., the brassica napus genome annotation downloaded from the ncbi database was merged […]


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MaLTA in publications

 (2)
PMCID: 4880854
PMID: 27229683
DOI: 10.1186/s12864-016-2745-8

[…] gene quantification method. one is alignment-based, calculating from transcriptome alignment results such as rsem [], bitseq [], express [], isoem and its variation tailor-made for ion torrent data malta-isoem [, ] or genome alignment results such as cufflinks/cuffdiff [], htseq [] and miso []; it is also important to differentiate count-based methods (e.g., htseq []) and methods that first […]

PMCID: 4619414
PMID: 26499887
DOI: 10.1186/s12864-015-2062-7

[…] sample. in addition to cufflinks, there are several other softwares such as isoem that can be used to infer isoform and gene expression levels from high-throughput transcriptome sequencing [, ], and malta [] that can be used to transcriptome assembly and quantification from ion torrent rna-seq data., the brassica napus genome annotation downloaded from the ncbi database was merged […]


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MaLTA institution(s)
Department of Computer Science, University of California, Los Angeles, CA, USA; Department of Computer Science, Georgia State University, Atlanta, GA, USA; Departmentment of Computer Science & Engineering, University of Connecticut, Storrs, CT, USA; Ion Bioinformatics, Life Technologies Corporation, Foster City, CA, USA

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