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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 87950 Package Groups 56001 Public Keys

Debian logo yaha  0.1.83-1

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One-liner (summary)

find split-read mappings on single-end queries

Description

yaha is an open source, flexible, sensitive and accurate DNA aligner designed for single-end reads. It supports three major modes of operation: * The default “Optimal Query Coverage” (-OQC) mode reports the best set of alignments that cover the length of each query. * Using “Filter By Similarity” (-FBS), along with the best set of alignments, yaha will also output alignments that are highly similar to an alignment in the best set. * Finally, yaha can output all the alignments found for each query. The -OQC and -FBS modes are specifically tuned to form split read mappings that can be used to accurately identify structural variation events (deletions, duplications, insertions or inversions) between the subject query and the reference genome.

License

Unknown

Size

34.7 KB

Downloads

0

Tags

debian/buster deb armhf main latest

Status  Completed
Checksum (MD5) a2a036ced53db5489007bb59a601a3df
Checksum (SHA-1) 3676a8bdf1d545bf6a926b5d0a8554a2c2a8c7c7
Checksum (SHA-256) 9f9e6db700ce23aace1a2ae025dc005a50d2386ddd433557c930003e84d00fdb
Checksum (SHA-512) 1d4de7fb1f81d3db198851d211f18a38bff5a948044960d1a8faec39607dbdb805…
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 3 months, 2 weeks ago
Uploaded By alex-borro
Slug Id yaha_0183-1_armhfdeb-amqo
Unique Id NB4D8wVGw9x7
Version (Raw) 0.1.83-1
Version (Parsed)
  • Major: 0
  • Minor: 1
  • Patch: 83
  • Pre (Str): (empty)
  • Pre (Num Array): 1
  • Type: SemVer (Strict)
  extended metadata
Homepage https://github.com/GregoryFaust/yaha
Installed Size 72.0 KB
Maintainer Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Priority optional
Section science
pkg yaha_0.1.83-1_armhf.deb 0
34.7 KB 		md5 sha1 sha256 sha512
Package Contents (yaha_0.1.83-1_armhf.deb)
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This package has 12 files/directories.

Dependencies

2

Checksum (md5)

66e1a5ee1ddf8208c99ecd0ed7aea871

Depends
libc6 >=2.4
Depends
libgcc1 >=1:3.5
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[![This version of 'yaha' @ Cloudsmith](https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/yaha/0.1.83-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true)](https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/yaha/0.1.83-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/)
|This version of 'yaha' @ Cloudsmith|
.. |This version of 'yaha' @ Cloudsmith| image:: https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/yaha/0.1.83-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true
   :target: https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/yaha/0.1.83-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/
image::https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/yaha/0.1.83-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true[link="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/yaha/0.1.83-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/",title="This version of 'yaha' @ Cloudsmith"]
<a href="https://cloudsmith.io/~ultimaker/repos/debian-backup/packages/detail/deb/yaha/0.1.83-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/"><img src="https://api.cloudsmith.com/v1/badges/version/ultimaker/debian-backup/deb/yaha/0.1.83-1/a=armhf;xc=main;d=debian%252Fbuster;t=binary/?render=true" alt="This version of 'yaha' @ Cloudsmith" /></a>

rendered as: This version of 'yaha' @ Cloudsmith

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

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

rendered as: Latest version of 'yaha' @ Cloudsmith

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

To install/use yaha @ version 0.1.83-1 ...

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 yaha=0.1.83-1
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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