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 Open-Source — ultimaker ultimaker (Ultimaker) / debian-backup — Project
A certifiably-awesome open-source package repository curated by Ultimaker, hosted by Cloudsmith.
Note: Packages in this repository are licensed as GNU General Public License v3.0 or later (dependencies may be licensed differently).
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Debian logo r-cran-spp  1.15.5-1

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One-liner (summary)

GNU R ChIP-seq processing pipeline

Description

R package for anlaysis of ChIP-seq and other functional sequencing data * Assess overall DNA-binding signals in the data and select appropriate quality of tag alignment. * Discard or restrict positions with abnormally high number of tags. * Calculate genome-wide profiles of smoothed tag density and save them in WIG files for viewing in other browsers. * Calculate genome-wide profiles providing conservative statistical estimates of fold enrichment ratios along the genome. These can be exported for browser viewing, or thresholded to determine regions of significant enrichment/depletion. * Determine statistically significant point binding positions * Assess whether the set of point binding positions detected at a current sequencing depth meets saturation criteria, and if does not, estimate what sequencing depth would be required to do so.

License

Unknown

Size

307.1 KB

Downloads

1

Tags

debian/buster deb armhf main latest

Status  Completed
Checksum (MD5) 9c7dd63080a1aa97bb797e2c2ef2e9c4
Checksum (SHA-1) ba0823faadf1563089ddcb1ebcb68c02c2dc428e
Checksum (SHA-256) 2d640bd359cc373b565e3c62c4a8ee47525f973ca4cf7aab5684912c976bf3c6
Checksum (SHA-512) 53a6d5790613295b5efb0c1d4a17edc15601394f5765370dd7af590614295d85e4…
GPG Signature
Download
GPG Fingerprint c0a114330029b468b1146f70c334efcb2c4f9be3
Distribution debian/buster - Debian - 10 (Buster)
Storage Region  Dublin, Ireland
Type  Binary (contains binaries and binary artifacts)
Uploaded At 10 months ago
Uploaded By alex-borro
Slug Id r-cran-spp_1155-1_armhfdeb-or6e
Unique Id Yo1TucoDDLik
Version (Raw) 1.15.5-1
Version (Parsed)
  • Major: 1
  • Minor: 15
  • Patch: 5
  • Pre (Str): (empty)
  • Pre (Num Array): 1
  • Type: SemVer (Strict)
  extended metadata
Homepage https://cran.r-project.org/package=spp
Installed Size 387.0 KB
Maintainer Debian R Packages Maintainers <r-pkg-team@alioth-lists.debian.net>
Priority optional
Section gnu-r
pkg r-cran-spp_1.15.5-1_armhf.deb 1
307.1 KB 		md5 sha1 sha256 sha512
Package Contents (r-cran-spp_1.15.5-1_armhf.deb)
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This package has 36 files/directories.

Dependencies

13

Checksum (md5)

aca9eedab6c39a9290f422d13f5d79eb

Depends
libbz2-1.0
Depends
libc6 >=2.4
Depends
libgcc1 >=1:3.5
Depends
libstdc++6 >=5.2
Depends
r-api-3.5
Depends
r-base-core >=3.5.1-1
Depends
r-bioc-rsamtools
Depends
r-cran-catools
Depends
r-cran-rcpp
Depends
zlib1g >=1:1.1.4
Replaces
r-other-hms-dbmi-spp
Conflicts
r-other-hms-dbmi-spp
Provides
r-other-hms-dbmi-spp
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[![This version of 'r-cran-spp' @ Cloudsmith](https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/r-cran-spp/1.15.5-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true)](https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/r-cran-spp/1.15.5-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/)
|This version of 'r-cran-spp' @ Cloudsmith|
.. |This version of 'r-cran-spp' @ Cloudsmith| image:: https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/r-cran-spp/1.15.5-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true
   :target: https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/r-cran-spp/1.15.5-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/
image::https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/r-cran-spp/1.15.5-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true[link="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/r-cran-spp/1.15.5-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/",title="This version of 'r-cran-spp' @ Cloudsmith"]
<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/r-cran-spp/1.15.5-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/r-cran-spp/1.15.5-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true" alt="This version of 'r-cran-spp' @ Cloudsmith" /></a>

rendered as: This version of 'r-cran-spp' @ Cloudsmith

To embed the badge for the latest package version, use the following: 

[![Latest version of 'r-cran-spp' @ Cloudsmith](https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/r-cran-spp/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true)](https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/r-cran-spp/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/)
|Latest version of 'r-cran-spp' @ Cloudsmith|
.. |Latest version of 'r-cran-spp' @ Cloudsmith| image:: https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/r-cran-spp/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true
   :target: https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/r-cran-spp/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/
image::https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/r-cran-spp/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true[link="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/r-cran-spp/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/",title="Latest version of 'r-cran-spp' @ Cloudsmith"]
<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/r-cran-spp/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/r-cran-spp/latest/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true" alt="Latest version of 'r-cran-spp' @ Cloudsmith" /></a>

rendered as: Latest version of 'r-cran-spp' @ Cloudsmith

These instructions assume you have setup the repository first (or read it).

To install/use r-cran-spp @ version 1.15.5-1 ...

To install packages, you can quickly setup the repository automatically (recommended): 

curl -1sLf \
  'https://dl.cloudsmith.io/public/ultimaker/debian-backup/setup.deb.sh' \
  | sudo -E bash

If you need to force a specific distribution, release/version, architecture, or component (if supported), you can also do that (e.g. if your system is compatible but not identical): 

curl -1sLf \
  'https://dl.cloudsmith.io/public/ultimaker/debian-backup/setup.deb.sh' \
  | sudo -E distro=debian codename=buster arch=ARCH component=COMPONENT bash

or ... you can manually configure it yourself before installing packages: 

apt-get install -y debian-keyring  # debian only
apt-get install -y debian-archive-keyring  # debian only
apt-get install -y apt-transport-https
# For Debian Stretch, Ubuntu 16.04 and later
keyring_location=/usr/share/keyrings/ultimaker-debian-backup-archive-keyring.gpg
# For Debian Jessie, Ubuntu 15.10 and earlier
keyring_location=/etc/apt/trusted.gpg.d/ultimaker-debian-backup.gpg
curl -1sLf 'https://dl.cloudsmith.io/public/ultimaker/debian-backup/gpg.C334EFCB2C4F9BE3.key' |  gpg --dearmor >> ${keyring_location}
curl -1sLf 'https://dl.cloudsmith.io/public/ultimaker/debian-backup/config.deb.txt?distro=debian&codename=buster&component=main' > /etc/apt/sources.list.d/ultimaker-debian-backup.list
sudo chmod 644 ${keyring_location}
sudo chmod 644 /etc/apt/sources.list.d/ultimaker-debian-backup.list
apt-get update
sudo apt-get install r-cran-spp=1.15.5-1
Warning: Note that this package is for Debian 10 (Buster) / armhf and may only work for that configuration.
Still stuck? Need help? Don't panic. Just contact us for help (even if you're not a customer).
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