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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).
Packages 87951 Package Groups 56001 Public Keys

Debian logo libtfbs-perl  0.7.1-2+b1

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One-liner (summary)

scanning DNA sequence with a position weight matrix

Description

The TFBS perl modules comprise a set of routines to interact with the Transfac and Jaspar databases that describe a special family of proteins, the transcription factors. These bind to genomic DNA to initiate (or prevent) the readout of a gene. Once multiple binding sites are known for a transcription factor, these are gathered in a single file and are aligned in order to find position-specific characteristica that might be used to predict such binding events in novel DNA sequences.

If you use TFBS in your work, please cite "Lenhard B., Wasserman W.W. (2002) TFBS: Computational framework for transcription factor binding site analysis. Bioinformatics 18:1135-1136".

Note: the TFBS perl module is no longer under active development. All the functionality can be found in the TFBSTools Bioconductor package; users are highly encouraged to switch. <http://bioconductor.org/packages/TFBSTools/>

License

Unknown

Size

236.1 KB

Downloads

0

Tags

debian/buster deb armhf main latest

Status  Completed
Checksum (MD5) 8e171789343027d6d7172adf510f985a
Checksum (SHA-1) 2afce1fa48d84c1255f66c080bc97d5c68dcedbe
Checksum (SHA-256) c71fe30a943be7f0caebc09a71f24a00ce0a94ce909539e0921fab331e31c509
Checksum (SHA-512) 912e993d9898dcd9ca8b5a65dfb67d03f1edd49c06e6485e425169f5685fe7ebb4…
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 7 months, 2 weeks ago
Uploaded By alex-borro
Slug Id libtfbs-perl_071-2b1_armhfdeb-vgtg
Unique Id Y5ezOPoX5A0E
Version (Raw) 0.7.1-2+b1
Version (Parsed)
  • Major: 0
  • Minor: 7
  • Patch: 1
  • Pre (Str): (empty)
  • Pre (Num Array): 2
  • Type: SemVer (Strict)
  • Metadata: b1
  extended metadata
Homepage http://tfbs.genereg.net
Installed Size 830.0 KB
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Priority optional
Section perl
Source libtfbs-perl (0.7.1-2)
pkg libtfbs-perl_0.7.1-2+b1_armhf.d… 0
236.1 KB 		md5 sha1 sha256 sha512
Package Contents (libtfbs-perl_0.7.1-2+b1_armhf.deb)
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This package has 150 files/directories.

Dependencies

10

Checksum (md5)

68622430526d3faa21f0f924afb634f0

Depends
bioperl
Depends
libc6 >=2.4
Depends
libdbi-perl
Depends
libwww-perl
Depends
pdl >=1:2.019-5+b1
Depends
pdlapi-12
Depends
perl >=5.28.0-3
Depends
perlapi-5.28.0
Recommends
libgd-gd2-noxpm-perl
Recommends
libgd-gd2-perl
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<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/libtfbs-perl/0.7.1-2+b1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/libtfbs-perl/0.7.1-2+b1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true" alt="This version of 'libtfbs-perl' @ Cloudsmith" /></a>

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rendered as: Latest version of 'libtfbs-perl' @ Cloudsmith

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

To install/use libtfbs-perl @ version 0.7.1-2+b1 ...

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 libtfbs-perl=0.7.1-2+b1
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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