Alview specifications

Information


Unique identifier OMICS_10692
Name Alview
Alternative name Alignment Viewer
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Inputs are files of short-read sequences aligned to a reference genome in the SAM/BAM format and files containing reference genome data.
Output data Outputs are visualizations of these aligned short reads.
Operating system Unix/Linux, Mac OS, Windows
Programming languages C
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Documentation


Maintainer


  • person_outline Richard Finney <>

Information


Unique identifier OMICS_10692
Name Alview
Alternative name Alignment Viewer
Interface Web user interface
Restrictions to use None
Input data Inputs are files of short-read sequences aligned to a reference genome in the SAM/BAM format and files containing reference genome data.
Output data Outputs are visualizations of these aligned short reads.
Programming languages C
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Richard Finney <>

Alview article

Alview citations

 (2)
2016
PMCID: 5084120

[…] can be used to further filter the sequences, as required. if only full-length sequences are required, sub-genomic sequences can be selected and deleted from the alignments using a multiple sequence alignment viewer/editor, such as mega6 (tamura et al. 2013), genedoc (nicholas et al. 1997) or aliview (larsson 2014). full-length sequences, or sub-genomic sequences covering a region of interest, […]

2011
PMCID: 3218415

[…] gpcr cluster dataset was done table s1, s2( in supplementary material) and infer the dependency of conservation by the other mentioned factors crucially., tm-motif, a software package and an alignment viewer, helps to map discovered motifs on predicted tm- helices and loop regions in msa and providing effective understanding on residue conservation in the long sequence window […]

Alview institution(s)
Computational Genomics Research Group, Center for Bioinformatics and Information Technology, National Cancer Institute, Bethesda, MD, USA
Alview funding source(s)
This study is supported by the NCI of the U.S. National Institutes of Health.

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