Linux Packages

abacas package on Ubuntu 20.04 LTS (Focal Fossa)

Current version: 1.3.1-6

How to install or uninstall abacas on Ubuntu 20.04 LTS (Focal Fossa)?

Last updated on January 20, 2022

1. Install abacas package.

Please follow the guidance below to install abacas package:

sudo apt update
sudo apt install abacas

2. Uninstall / Remove abacas package.

Please follow the instructions below to uninstall abacas package:

sudo apt remove abacas
sudo apt autoclean && sudo apt autoremove

3. Full information of abacas package.

Package: abacas
Architecture: all
Version: 1.3.1-6
Priority: optional
Section: universe/science
Origin: Ubuntu
Maintainer: Ubuntu Developers
Original-Maintainer: Debian Med Packaging Team
Installed-Size: 109
Depends: mummer
Recommends: primer3
Filename: pool/universe/a/abacas/abacas_1.3.1-6_all.deb
Size: 24456
MD5sum: 563f7dba344c467aca79dde5fe4baa91
SHA1: 5aac860d4c5ec8b0c71287a658ee5a81bcc52232
SHA256: 9e8ff4cecc441cf35ce90510622ab0a619e4bcc77a18ca817911212b5bf8d682
Description-en: close gaps in genomic alignments from short reads
ABACAS (Algorithm Based Automatic Contiguation of Assembled Sequences)
intends to rapidly contiguate (align, order, orientate), visualize and
design primers to close gaps on shotgun assembled contigs based on a
reference sequence.
ABACAS uses MUMmer to find alignment positions and identify syntenies
of assembled contigs against the reference. The output is then processed
to generate a pseudomolecule taking overlapping contigs and gaps in to
account. ABACAS generates a comparison file that can be used to
visualize ordered and oriented contigs in ACT. Synteny is represented by
red bars where colour intensity decreases with lower values of percent
identity between comparable blocks. Information on contigs such as the
orientation, percent identity, coverage and overlap with other contigs
can also be visualized by loading the outputted feature file on ACT.
Description-md5: 2037379aa4a21c795f2b3f3ba85ac577

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