asSeq statistics

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Citations per year

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Tool usage distribution map

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Associated diseases

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asSeq specifications

Information


Unique identifier OMICS_01948
Name asSeq
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C, R
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for asSeq

asSeq in pipeline

2016
PMCID: 4977722
PMID: 27551435
DOI: 10.1038/celldisc.2016.27

[…] col and c24 (http://1001genomes.org/data/mpi/mpischneeberger2011/releases/current/c24/marker/c24.snps.tair9.txt) and allele-specific mapping was extracted from bam alignment file of f1 hybrids using asseq [], which was used as input for htseq-count to calculate the allelic expression level of negs., the rnaseq data were validated using quantitative real-time pcr analysis, as described previously […]


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asSeq in publications

 (3)
PMCID: 4977722
PMID: 27551435
DOI: 10.1038/celldisc.2016.27

[…] col and c24 (http://1001genomes.org/data/mpi/mpischneeberger2011/releases/current/c24/marker/c24.snps.tair9.txt) and allele-specific mapping was extracted from bam alignment file of f1 hybrids using asseq [], which was used as input for htseq-count to calculate the allelic expression level of negs., the rnaseq data were validated using quantitative real-time pcr analysis, as described previously […]

PMCID: 3877737
PMID: 24270603
DOI: 10.1038/nmeth.2736

[…] wrongly assigned homozygous snps due to potential genotyping or sequencing errors., to perform cis-eqtl mapping using both genetic data and rna-seq or by also including ase information, we employed asseq r package (http://www.bios.unc.edu/~weisun/software/asseq.htm). we examined all snps within the gene body or outside the gene body (within 200 kb of the transcription start or end sites) […]

PMCID: 2778333
PMID: 19797409
DOI: 10.1093/bioinformatics/btp569

[…] carried out our tests on pair-wise alignments)., we align the networks using both sequence and our functional similarity measures. each edge will therefore have two alignment scores assigned to it, asseq (for sequence-based alignment) and asfunc (for function-based alignment)., the graph-based score is constructed from two commonly used graph statistics. the clustering coefficient is a local […]


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asSeq institution(s)
Department of Biostatistics, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA

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