How To Install glimmer on Fedora 36

In this tutorial we learn how to install glimmer in Fedora 36. glimmer is System for finding genes in microbial DNA

Introduction

In this tutorial we learn how to install glimmer on Fedora 36.

What is glimmer

Glimmer is a system for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses. Glimmer (Gene Locator and Interpolated Markov ModelER) uses interpolated Markov models (IMMs) to identify the coding regions and distinguish them from noncoding DNA.

We can use yum or dnf to install glimmer on Fedora 36. In this tutorial we discuss both methods but you only need to choose one of method to install glimmer.

Install glimmer on Fedora 36 Using dnf

Update yum database with dnf using the following command.

sudo dnf makecache --refresh

After updating yum database, We can install glimmer using dnf by running the following command:

sudo dnf -y install glimmer

Install glimmer on Fedora 36 Using yum

Update yum database with yum using the following command.

sudo yum makecache --refresh

After updating yum database, We can install glimmer using yum by running the following command:

sudo yum -y install glimmer

How To Uninstall glimmer on Fedora 36

To uninstall only the glimmer package we can use the following command:

sudo dnf remove glimmer

glimmer Package Contents on Fedora 36

/usr/bin/g3-from-scratch.csh
/usr/bin/g3-from-training.csh
/usr/bin/g3-iterated.csh
/usr/bin/glimmer3
/usr/lib/.build-id
/usr/lib/.build-id/0b
/usr/lib/.build-id/0b/67c6c249897206755e48b4dbde943d06048c5e
/usr/lib/.build-id/1b
/usr/lib/.build-id/1b/1aa4e2d49da9a65c7be586b633dd8429397b7d
/usr/lib/.build-id/27
/usr/lib/.build-id/27/4e1ef3d7ff5f059773e864cb0b84fafaec7743
/usr/lib/.build-id/2e
/usr/lib/.build-id/2e/e3c2549e39ea082e91dbcb379b44644c25f43f
/usr/lib/.build-id/4f
/usr/lib/.build-id/4f/4e630ba64e7995f7cc5ed348a8131d6ebd9a97
/usr/lib/.build-id/51
/usr/lib/.build-id/51/bf74756d486c2e88090ca2d09030849d508753
/usr/lib/.build-id/51/e799606e8b257129621e458b2663b401141141
/usr/lib/.build-id/6b
/usr/lib/.build-id/6b/50b67bafb897794bbbd1cae249483b3e67f3e5
/usr/lib/.build-id/6d
/usr/lib/.build-id/6d/589d77db325d5b58308d70a893e0396393ae2c
/usr/lib/.build-id/8a
/usr/lib/.build-id/8a/47e9dab3b20d5bb407b24cfdd77d508901427b
/usr/lib/.build-id/9b
/usr/lib/.build-id/9b/f8d438bdfc2ca0a6843942269149f7cb4f8975
/usr/lib/.build-id/a4
/usr/lib/.build-id/a4/fd7534c4e6077f519cf6899e55fed0d0a5658b
/usr/lib/.build-id/e1
/usr/lib/.build-id/e1/166cf95a993beba5cca1eb8026216fc1bc2203
/usr/libexec/glimmer3
/usr/libexec/glimmer3/anomaly
/usr/libexec/glimmer3/build-fixed
/usr/libexec/glimmer3/build-icm
/usr/libexec/glimmer3/entropy-profile
/usr/libexec/glimmer3/entropy-score
/usr/libexec/glimmer3/extract
/usr/libexec/glimmer3/glimmer3
/usr/libexec/glimmer3/long-orfs
/usr/libexec/glimmer3/multi-extract
/usr/libexec/glimmer3/score-fixed
/usr/libexec/glimmer3/start-codon-distrib
/usr/libexec/glimmer3/uncovered
/usr/libexec/glimmer3/window-acgt
/usr/share/doc/glimmer
/usr/share/doc/glimmer/LICENSE
/usr/share/doc/glimmer/glim302notes.pdf
/usr/share/doc/glimmer/sample-run
/usr/share/doc/glimmer/sample-run/from-scratch.detail
/usr/share/doc/glimmer/sample-run/from-scratch.icm
/usr/share/doc/glimmer/sample-run/from-scratch.longorfs
/usr/share/doc/glimmer/sample-run/from-scratch.predict
/usr/share/doc/glimmer/sample-run/from-scratch.train
/usr/share/doc/glimmer/sample-run/from-training.detail
/usr/share/doc/glimmer/sample-run/from-training.icm
/usr/share/doc/glimmer/sample-run/from-training.motif
/usr/share/doc/glimmer/sample-run/from-training.predict
/usr/share/doc/glimmer/sample-run/from-training.train
/usr/share/doc/glimmer/sample-run/from-training.upstream
/usr/share/doc/glimmer/sample-run/iterated.coords
/usr/share/doc/glimmer/sample-run/iterated.detail
/usr/share/doc/glimmer/sample-run/iterated.icm
/usr/share/doc/glimmer/sample-run/iterated.longorfs
/usr/share/doc/glimmer/sample-run/iterated.motif
/usr/share/doc/glimmer/sample-run/iterated.predict
/usr/share/doc/glimmer/sample-run/iterated.run1.detail
/usr/share/doc/glimmer/sample-run/iterated.run1.predict
/usr/share/doc/glimmer/sample-run/iterated.train
/usr/share/doc/glimmer/sample-run/iterated.upstream
/usr/share/doc/glimmer/sample-run/tpall.fna
/usr/share/doc/glimmer/sample-run/tpall.nh
/usr/share/glimmer3
/usr/share/glimmer3/get-motif-counts.awk
/usr/share/glimmer3/glim-diff.awk
/usr/share/glimmer3/match-list-col.awk
/usr/share/glimmer3/not-acgt.awk
/usr/share/glimmer3/upstream-coords.awk

References

Summary

In this tutorial we learn how to install glimmer on Fedora 36 using yum and [dnf]((/fedora/36/dnf/).