bamsignals statistics

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Citations per year

Number of citations per year for the bioinformatics software tool bamsignals
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Tool usage distribution map

This map represents all the scientific publications referring to bamsignals per scientific context
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bamsignals specifications

Information


Unique identifier OMICS_15778
Name bamsignals
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input format BAM
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.12.1
Stability Stable
Requirements
methods, BiocGenerics, IRanges, GenomicRanges, Rsamtools, BiocStyle, zlibbioc, rmarkdown, knitr, Rcpp(>=0.10.6), R(>=3.2.0), testthat(>=0.9)
Maintained Yes

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Versioning


No version available

Documentation


Maintainer


  • person_outline Alessandro Mammana

bamsignals citations

 (2)
library_books

reChIP seq reveals widespread bivalency of H3K4me3 and H3K27me3 in CD4+ memory T cells

2016
Nat Commun
PMCID: 4992058
PMID: 27530917
DOI: 10.1038/ncomms12514

[…] in a window spanning ±750 base pairs from these TSSs for Input, H3K4me1, H3K4me3, H3K9me3, H3K27ac, H3K27me3, H3K36me3, H3K4me3 reChIP and H3K27me3 reChIP in R (ref. ) using the bioconductor package bamsignals (version 1.4 https://bioconductor.org/packages/bamsignals). For CpG islands, we downloaded the CpG island annotation from UCSC and counted reads along the complete length of the CpG island. […]

call_split

PHF13 is a molecular reader and transcriptional co regulator of H3K4me2/3

2016
eLife
PMCID: 4915813
PMID: 27223324
DOI: 10.7554/eLife.10607.094
call_split See protocol

[…] s built with the --sjdbGTFfile option set to “Mus_musculus.GRCm38.83.gtf”.Differential gene expression was determined by DESeq2 (PMID: 25516281). Counting was performed using the Bioconductor package bamsignals. […]


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