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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).

Debian logo flexbar  1:3.4.0-2

One-liner (summary)

flexible barcode and adapter removal for sequencing platforms

Description

Flexbar preprocesses high-throughput sequencing data efficiently. It demultiplexes barcoded runs and removes adapter sequences. Moreover, trimming and filtering features are provided. Flexbar increases mapping rates and improves genome and transcriptome assemblies. It supports next-generation sequencing data in fasta/q and csfasta/q format from Illumina, Roche 454, and the SOLiD platform.

Parameter names changed in Flexbar. Please review scripts. The recent months, default settings were optimised, several bugs were fixed and various improvements were made, e.g. revamped command-line interface, new trimming modes as well as lower time and memory requirements.

License

Unknown

Size

283.3 KB

Downloads

0

Status  Completed
Checksum (MD5) 5afc5c75feb91e84ff6acfb5d180ca78
Checksum (SHA-1) b2aa91b3e482c61b853b168f191b7f5eed5b9fd3
Checksum (SHA-256) 1a6e2a7baa902cd2e212e54d10b46440fa44509a54781c64a20267aee8c19c12
Checksum (SHA-512) 126921a709d08594456d8e7bf732a302e572f20b78d89dc45d4795c8b276a21293…
GPG Signature
GPG Fingerprint c0a114330029b468b1146f70c334efcb2c4f9be3
Distribution debian/buster - Debian - 10 (Buster)
Storage Region  Dublin, Ireland
Type  Binary (contains binaries and binary artifacts)
Uploaded At 5 months ago
Uploaded By alex-borro
Slug Id flexbar_340-2_arm64deb-c5rs
Unique Id for3hHCwgcEc
Version (Raw) 1:3.4.0-2
Version (Parsed)
  • Epoch: 1
  • Major: 3
  • Minor: 4
  • Patch: 0
  • Pre (Str): (empty)
  • Pre (Num Array): 2
  • Type: SemVer (Compat)
  extended metadata
Homepage https://github.com/seqan/flexbar
Installed Size 1.0 MB
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Priority optional
Section science
pkg flexbar_3.4.0-2_arm64.deb 0
283.3 KB
md5 sha1 sha256 sha512
Package Contents (flexbar_3.4.0-2_arm64.deb)
Loading...

This package has 61 files/directories.

Dependencies

6

Checksum (md5)

339c47815a78be90485c8c14591b9090

Depends
libbz2-1.0
Depends
libc6 >=2.17
Depends
libgcc1 >=1:3.0
Depends
libstdc++6 >=7
Depends
libtbb2
Depends
zlib1g >=1:1.1.4
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[![This version of 'flexbar' @ Cloudsmith](https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/flexbar/1:3.4.0-2/a=arm64;xc=main;d=debian%252Fbuster;t=binary/?render=true)](https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/flexbar/1:3.4.0-2/a=arm64;xc=main;d=debian%252Fbuster;t=binary/)
|This version of 'flexbar' @ Cloudsmith|
.. |This version of 'flexbar' @ Cloudsmith| image:: https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/flexbar/1:3.4.0-2/a=arm64;xc=main;d=debian%252Fbuster;t=binary/?render=true
   :target: https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/flexbar/1:3.4.0-2/a=arm64;xc=main;d=debian%252Fbuster;t=binary/
image::https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/flexbar/1:3.4.0-2/a=arm64;xc=main;d=debian%252Fbuster;t=binary/?render=true[link="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/flexbar/1:3.4.0-2/a=arm64;xc=main;d=debian%252Fbuster;t=binary/",title="This version of 'flexbar' @ Cloudsmith"]
<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/flexbar/1:3.4.0-2/a=arm64;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/flexbar/1:3.4.0-2/a=arm64;xc=main;d=debian%252Fbuster;t=binary/?render=true" alt="This version of 'flexbar' @ Cloudsmith" /></a>

rendered as: This version of 'flexbar' @ Cloudsmith

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

[![Latest version of 'flexbar' @ Cloudsmith](https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/flexbar/latest/a=arm64;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true)](https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/flexbar/latest/a=arm64;xc=main;d=debian%252Fbuster;t=binary/)
|Latest version of 'flexbar' @ Cloudsmith|
.. |Latest version of 'flexbar' @ Cloudsmith| image:: https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/flexbar/latest/a=arm64;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true
   :target: https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/flexbar/latest/a=arm64;xc=main;d=debian%252Fbuster;t=binary/
image::https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/flexbar/latest/a=arm64;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true[link="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/flexbar/latest/a=arm64;xc=main;d=debian%252Fbuster;t=binary/",title="Latest version of 'flexbar' @ Cloudsmith"]
<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/flexbar/latest/a=arm64;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/flexbar/latest/a=arm64;xc=main;d=debian%252Fbuster;t=binary/?render=true&show_latest=true" alt="Latest version of 'flexbar' @ Cloudsmith" /></a>

rendered as: Latest version of 'flexbar' @ Cloudsmith

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

To install/use flexbar @ version 1:3.4.0-2 ...

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 flexbar=1:3.4.0-2
Warning: Note that this package is for Debian 10 (Buster) / arm64 and may only work for that configuration.
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