- Annotation in the biological analysis workflow
- importance of gene annotation in whole-genome analyses
- PGAP in brief
- automated pipeline
- Protein-coding gene prediction
- protein homology
- Ab initio calls
- Hidden Markov Model
- non-coding gene prediction
- tRNAscan-SE
- RFAM
- Homology
- functional annotation
- Hidden Markov Models
- BlastRules
- CDD architectures
- Protein homology
- Why run PGAP yourself
- QC
- Quick
- Large volume
- compresion to Refseq
- pipeline
- importance of gene annotation in whole-genome analyses
- what is stand-alone PGAP
- Goals for stand-alone PGAP
- From PGAP at NCBI to stand-alone PGAP
- How is stand-alone PGAP packaged
- Hardware and software requirements
- Goals for stand-alone PGAP
- Start-to-finish annotation
- Download pgap.py
- Dowdload the Docker image and reference data
- Prepare the inputs
- input file format
- FASTA
- Metadata
- Run the annotation in the container
- Execution of PGAP in a container
- Execution of PGAP in a container
- Review the results
- output formats
- FASTA
- GFF
- ASN.1
- GenBank
- Metadata
- Topology
- Species
- Submitter
- Submitter info
- Annotation summary
- Run information
- Many frameshifts
- output formats
- PGAP on 'preliminary assembly'
- Features in the works
2020.11.30【读书笔记】丨在本地运行NCBI细菌基因组注释工具(PGAP)
最新推荐文章于 2023-03-01 13:09:55 发布