You are seeing a free-to-access but limited selection of the activity Altmetric has collected about this research output.
Click here to find out more.
Mendeley readers
| Title |
The standard operating procedure of the DOE-JGI Metagenome Annotation Pipeline (MAP v.4)
|
|---|---|
| Published in |
Environmental Microbiome, February 2016
|
| DOI | 10.1186/s40793-016-0138-x |
| Pubmed ID | |
| Authors |
Marcel Huntemann, Natalia N. Ivanova, Konstantinos Mavromatis, H. James Tripp, David Paez-Espino, Kristin Tennessen, Krishnaveni Palaniappan, Ernest Szeto, Manoj Pillay, I-Min A. Chen, Amrita Pati, Torben Nielsen, Victor M. Markowitz, Nikos C. Kyrpides |
| Abstract |
The DOE-JGI Metagenome Annotation Pipeline (MAP v.4) performs structural and functional annotation for metagenomic sequences that are submitted to the Integrated Microbial Genomes with Microbiomes (IMG/M) system for comparative analysis. The pipeline runs on nucleotide sequences provided via the IMG submission site. Users must first define their analysis projects in GOLD and then submit the associated sequence datasets consisting of scaffolds/contigs with optional coverage information and/or unassembled reads in fasta and fastq file formats. The MAP processing consists of feature prediction including identification of protein-coding genes, non-coding RNAs and regulatory RNAs, as well as CRISPR elements. Structural annotation is followed by functional annotation including assignment of protein product names and connection to various protein family databases. |
Mendeley readers
The data shown below were compiled from readership statistics for 187 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| India | 1 | <1% |
| United States | 1 | <1% |
| France | 1 | <1% |
| Australia | 1 | <1% |
| Unknown | 183 | 98% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Researcher | 45 | 24% |
| Student > Ph. D. Student | 41 | 22% |
| Student > Master | 22 | 12% |
| Student > Bachelor | 14 | 7% |
| Student > Doctoral Student | 9 | 5% |
| Other | 21 | 11% |
| Unknown | 35 | 19% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 59 | 32% |
| Biochemistry, Genetics and Molecular Biology | 36 | 19% |
| Environmental Science | 20 | 11% |
| Immunology and Microbiology | 10 | 5% |
| Computer Science | 4 | 2% |
| Other | 14 | 7% |
| Unknown | 44 | 24% |