---
title: Install pathogenie on Linux | Snap Store
description: Get the latest version of pathogenie for Linux - microbial genome annotation
  and gene finding tool
url: https://snapcraft.io/pathogenie
---

# pathogenie

[Damien Farrell (dmnfarrell)](https://snapcraft.io/publisher/dmnfarrell "View all snaps from Damien Farrell (dmnfarrell)")

* [Damien Farrell (dmnfarrell)](https://snapcraft.io/publisher/dmnfarrell "View all snaps from Damien Farrell (dmnfarrell)")
* [Science](https://snapcraft.io/search?categories=science)

latest/beta 0.3.0-10-gb0509b7

Install latest/beta of pathogenie

This channel hasn't been updated in a while. It might be unmaintained and have stability or security issues.

---

**Install using the command line**

```
sudo snap install pathogenie --beta
```

Don't have snapd? [Get set up for snaps](https://snapcraft.io/docs/installing-snapd).

pathogenie is only available on the unstable beta channel. It could break and change often.

---

### Package name

* pathogenie

---

### License

* GPL-3.0+

---

### Last updated

* 31 January 2021 - latest/beta

This snap hasn't been updated in a while. It might be unmaintained and have stability or security issues.

---

### Websites

* [github.com/dmnfarrell/pathogenie](https://github.com/dmnfarrell/pathogenie "https://github.com/dmnfarrell/pathogenie")

---

### Contact

* [github.com/dmnfarrell](https://github.com/dmnfarrell "https://github.com/dmnfarrell")

---

##### Report a Snap Store violation

* [Report this Snap](https://snapcraft.io/pathogenie#report-snap-modal)

---

* [Description](https://snapcraft.io/pathogenie#tab-description)
* [Security](https://snapcraft.io/pathogenie#tab-security)

#### microbial genome annotation and gene finding tool

pathogenie is a desktop and command line program for annotating draft bacterial
and viral genomes. It may also be used for quickly detecting arbitrary sequences such
as antibiotic resistance genes (AMR) proteins in nucleotide sequences. It uses Blast
to find hits to known gene sequences from sequence databases. The inputs are fasta files.
Annotation is performed in a similar manner to Prokka and first requires an assembled
genome if you have sequenced reads.
From the GUI you may load fasta files into a table and then run genome annotation or gene finding with custom databases. This program utilizes the sequence databases for gene finding compiled by abricate.
This program is under development. Suggestions are welcome.

---

## Install pathogenie on your Linux distribution

Choose your Linux distribution to get detailed installation instructions. If yours is not shown, get more details on the [installing snapd documentation](https://snapcraft.io/docs/installing-snapd).

[### Arch Linux](https://snapcraft.io/install/pathogenie/arch)

[### CentOS](https://snapcraft.io/install/pathogenie/centos)

[### Debian](https://snapcraft.io/install/pathogenie/debian)

[### elementary OS](https://snapcraft.io/install/pathogenie/elementary)

[### Fedora](https://snapcraft.io/install/pathogenie/fedora)

[### KDE Neon](https://snapcraft.io/install/pathogenie/kde-neon)

[### Kubuntu](https://snapcraft.io/install/pathogenie/kubuntu)

[### Manjaro](https://snapcraft.io/install/pathogenie/manjaro)

[### Pop!\_OS](https://snapcraft.io/install/pathogenie/pop)

[### openSUSE](https://snapcraft.io/install/pathogenie/opensuse)

[### Red Hat Enterprise Linux](https://snapcraft.io/install/pathogenie/rhel)

[### Ubuntu](https://snapcraft.io/install/pathogenie/ubuntu)