How To Install percolator on Fedora 34
Introduction
In this tutorial we learn how to install percolator on Fedora 34.
What is percolator
The first step in analyzing an mass spectrometry assay is to match the harvested spectra against a target database using database search engines such as Sequest and Mascot, a process that renders list of peptide-spectrum matches. However, it is not trivial to assess the accuracy of these identifications. Percolator uses a semi-supervised machine learning to discriminate correct from incorrect peptide-spectrum matches, and calculates accurate statistics such as q-value (FDR) and posterior error probabilities.
We can use yum or dnf to install percolator on Fedora 34. In this tutorial we discuss both methods but you only need to choose one of method to install percolator.
Install percolator on Fedora 34 Using dnf
Update yum database with dnf using the following command.
sudo dnf makecache --refresh
The output should look something like this:
Fedora 34 - x86_64 20 kB/s | 6.6 kB 00:00
Fedora 34 openh264 (From Cisco) - x86_64 1.4 kB/s | 989 B 00:00
Fedora Modular 34 - x86_64 68 kB/s | 6.5 kB 00:00
Fedora 34 - x86_64 - Updates 3.5 kB/s | 6.2 kB 00:01
Fedora Modular 34 - x86_64 - Updates 17 kB/s | 5.9 kB 00:00
Metadata cache created.
After updating yum database, We can install percolator using dnf by running the following command:
sudo dnf -y install percolator
Install percolator on Fedora 34 Using yum
Update yum database with yum using the following command.
sudo yum makecache --refresh
The output should look something like this:
Fedora 34 - x86_64 20 kB/s | 6.6 kB 00:00
Fedora 34 openh264 (From Cisco) - x86_64 1.4 kB/s | 989 B 00:00
Fedora Modular 34 - x86_64 68 kB/s | 6.5 kB 00:00
Fedora 34 - x86_64 - Updates 3.5 kB/s | 6.2 kB 00:01
Fedora Modular 34 - x86_64 - Updates 17 kB/s | 5.9 kB 00:00
Metadata cache created.
After updating yum database, We can install percolator using yum by running the following command:
sudo yum -y install percolator
How To Uninstall percolator on Fedora 34
To uninstall only the percolator package we can use the following command:
sudo dnf remove percolator
percolator Package Contents on Fedora 34
/usr/bin/elude
/usr/bin/msgf2pin
/usr/bin/percolator
/usr/bin/qvality
/usr/bin/sqt2pin
/usr/bin/tandem2pin
/usr/lib/.build-id
/usr/lib/.build-id/19
/usr/lib/.build-id/19/a5cac2d61fd5a38c19e20ca0897106aee9fcfe
/usr/lib/.build-id/85
/usr/lib/.build-id/85/4a605734a9b484f6b8baec1309e42b2a2a9f1b
/usr/lib/.build-id/8e
/usr/lib/.build-id/8e/5986b1b36f5cc82d8deb513cf2620b784918dd
/usr/lib/.build-id/95
/usr/lib/.build-id/95/b23ff91688b195c500c95dc4af5b015092dc36
/usr/lib/.build-id/eb
/usr/lib/.build-id/eb/e0d22da81401177b19b5e74fa89a7895ff504f
/usr/lib/.build-id/f7
/usr/lib/.build-id/f7/223c8d7837316b9ef81464531b000329a45578
References
Summary
In this tutorial we learn how to install percolator on Fedora 34 using yum and dnf.
