IMG Annotation Pipeline (IMGAP) v5.1.13
- Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
The IMG Annotation Pipeline is a collection of Bash and Python scripts to control a workflow for structural and functional annotation of prokaryotic genomes, metagenomes, and metatranscriptomes. The bash scripts in general control the overall workflow and are wrappers around 3rd party executables (not included in repo) that predict features or functions. Whereas the Python scripts do post-processing of raw output in terms of filtering or format transformation and in some cases contain some logic for picking the correct predictions or resolving overlaps. The pipeline is tailored to produce results required by IMG (https://img.jgi.doe.gov/) and is executed on every dataset submitted to IMG via https://img.jgi.doe.gov/submit. These consist of internal genomes, metagenomes and metatranscriptomes sequenced and assembled at the JGI, as well as datasets submitted by external users (non-lab/JGI affiliates).
- Short Name / Acronym:
- IMGAP v5.1.13
- Site Accession Number:
- 2023-053
- Software Type:
- Scientific
- License(s):
- GNU General Public License v3.0
- Research Organization:
- Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
- Sponsoring Organization:
- USDOEPrimary Award/Contract Number:AC02-05CH11231
- DOE Contract Number:
- AC02-05CH11231
- Code ID:
- 134858
- OSTI ID:
- code-134858
- Country of Origin:
- United States
Similar Records
IMG/M: integrated genome and metagenome comparative data analysis system
IMG/M 4 version of the integrated metagenome comparative analysis system