Difference between revisions of "FlyBase:FlyBase Help Index"
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== '''Video Tutorials''' == | == '''Video Tutorials''' == | ||
| − | *[https://www.youtube.com/ | + | *[https://www.youtube.com/channel/UCG-KSNq46vkezAwbrVQojYA/videos FlyBase Video Tutorials] on YouTube organized into four playlists. |
| + | |||
| + | '''Basic navigation series | ||
| + | ''' | ||
| + | *[https://www.youtube.com/watch?v=OlHv3zWt5cw How to find all data related to a gene] | ||
| + | *[https://www.youtube.com/watch?v=xACOH8SYpoQ&t=60s How to generate an excel file of all alleles of a gene] | ||
| + | *[https://www.youtube.com/watch?v=GQ_2X29Gx-E Finding related genes in FlyBase: Gene Groups] | ||
| + | *[https://www.youtube.com/watch?v=jgCON15SiRo Finding related genes/alleles in FlyBase: Vocabularies] | ||
| + | *[https://www.youtube.com/watch?v=XFCR8BRfGp0 Finding related genes in FlyBase: The Gene Ontology] | ||
| + | *[https://www.youtube.com/watch?v=6IDlJGXdIP8 Gene Snapshots in FlyBase] | ||
| + | *[https://www.youtube.com/watch?v=hZgsDPypZvk Finding genes with similar phenotypes] | ||
| + | |||
| + | '''Tools series | ||
| + | ''' | ||
| + | *[https://www.youtube.com/watch?v=KpJVkopUBDM&t=107s RNA-Seq Part I: Using GBrowse] | ||
| + | *[https://www.youtube.com/watch?v=KpJVkopUBDM&t=107s RNA-Seq Part II: Using RNA-Seq Profile Search] | ||
| + | *[https://www.youtube.com/watch?v=mcMpRxeX-KY RNA Seq Part III: Searching for Similarly Expressed Genes] | ||
| + | *[https://www.youtube.com/watch?v=jgCON15SiRo Finding related genes/alleles in FlyBase: Vocabularies] | ||
| + | *[https://www.youtube.com/watch?v=JsNyrNG28M0 Using the Orthology search tool] | ||
| + | *[https://www.youtube.com/watch?v=XFCR8BRfGp0 Finding related genes in FlyBase: The Gene Ontology] | ||
| + | *[https://www.youtube.com/watch?v=hZgsDPypZvk Finding genes with similar phenotypes] | ||
| + | |||
| + | '''RNA-Seq series | ||
| + | ''' | ||
| + | *[https://www.youtube.com/watch?v=KpJVkopUBDM&t=107s RNA-Seq Part I: Using GBrowse] | ||
| + | *[https://www.youtube.com/watch?v=KpJVkopUBDM&t=107s RNA-Seq Part II: Using RNA-Seq Profile Search] | ||
| + | *[https://www.youtube.com/watch?v=mcMpRxeX-KY RNA Seq Part III: Searching for Similarly Expressed Genes] | ||
| + | |||
| + | '''FlyBase Guidelines | ||
| + | ''' | ||
| + | *[https://www.youtube.com/watch?v=HsoWqclXMng Author Guidelines] | ||
| + | *[https://www.youtube.com/watch?v=16SGlcASOL4 How to cite FlyBase] | ||
== '''Data Documentation''' == | == '''Data Documentation''' == | ||
| − | '''Curation | + | '''Curation''' |
| − | *[[FlyBase:Controlled vocabularies used by FlyBase | Controlled | + | *[[FlyBase:Controlled vocabularies used by FlyBase | Controlled Vocabularies used by FlyBase]] |
| + | *[[FlyBase:Gene Model Annotation Guidelines | Gene Model Annotation Guidelines]] | ||
| + | *[[FlyBase:Gene Ontology (GO) Annotation | Gene Ontology (GO) Annotation]] | ||
*[[FlyBase:Nontraditional alleles | Nontraditional alleles]] | *[[FlyBase:Nontraditional alleles | Nontraditional alleles]] | ||
*[[FlyBase:Vectors and Constructs | Vectors and Constructs]] | *[[FlyBase:Vectors and Constructs | Vectors and Constructs]] | ||
| − | |||
'''Field by Field guides to FlyBase Reports''' | '''Field by Field guides to FlyBase Reports''' | ||
| Line 17: | Line 49: | ||
*[[FlyBase:Allele Report | Allele Report]] | *[[FlyBase:Allele Report | Allele Report]] | ||
*[[FlyBase:Balancer/Genotype variant Report | Balancer/Genotype variant Report]] | *[[FlyBase:Balancer/Genotype variant Report | Balancer/Genotype variant Report]] | ||
| + | *[[FlyBase:Cell Line Report | Cell Line Report]] | ||
*[[FlyBase:Clone Report | Clone Report]] | *[[FlyBase:Clone Report | Clone Report]] | ||
| − | |||
*[[FlyBase:Gene Report | Gene Report]] | *[[FlyBase:Gene Report | Gene Report]] | ||
*[[FlyBase:Human Disease Report | Human Disease Model Report]] | *[[FlyBase:Human Disease Report | Human Disease Model Report]] | ||
| Line 37: | Line 69: | ||
'''Computed Fields''' | '''Computed Fields''' | ||
| − | *[[FlyBase:Computed | + | *[[FlyBase:Computed cytological data | Computed Cytological Data]] |
| − | *[[FlyBase:Computed | + | *[[FlyBase:Computed Feature type of genes | Computed Feature Type of Genes]] |
'''Downloads''' | '''Downloads''' | ||
| Line 44: | Line 76: | ||
== '''Tools Documentation''' == | == '''Tools Documentation''' == | ||
| + | |||
| + | '''Tools Overview''' | ||
| + | *[[FlyBase:Tools_Overview | Tools Overview]] | ||
'''Query Tools Help | '''Query Tools Help | ||
''' | ''' | ||
*[[FlyBase:Tools_Overview#Jump_to_Gene | Jump to Gene]] | *[[FlyBase:Tools_Overview#Jump_to_Gene | Jump to Gene]] | ||
| − | |||
*[http://beta.flybase.org/cgi-bin/qb.pl QueryBuilder] | *[http://beta.flybase.org/cgi-bin/qb.pl QueryBuilder] | ||
| + | *[[FlyBase:QuickSearch | QuickSearch]] | ||
*[http://beta.flybase.org/vocabularies Vocabularies] | *[http://beta.flybase.org/vocabularies Vocabularies] | ||
| Line 55: | Line 90: | ||
''' | ''' | ||
* BLAST | * BLAST | ||
| + | * [http://beta.flybase.org/cytosearrch CytoSearch] | ||
| + | * [http://beta.flybase.org/featuremapper FeatureMapper] | ||
* [[FlyBase:GBrowse | FlyBase GBrowse Help]] | * [[FlyBase:GBrowse | FlyBase GBrowse Help]] | ||
* [[FlyBase:GBrowse Tracks | GBrowse Tracks]] | * [[FlyBase:GBrowse Tracks | GBrowse Tracks]] | ||
* [[FlyBase:JBrowse | FlyBase JBrowse Help]] | * [[FlyBase:JBrowse | FlyBase JBrowse Help]] | ||
* [[FlyBase:JBrowse Tracks | JBrowse Tracks]] | * [[FlyBase:JBrowse Tracks | JBrowse Tracks]] | ||
| − | |||
| − | |||
'''Retrieve/Convert Tools Help''' | '''Retrieve/Convert Tools Help''' | ||
| Line 69: | Line 104: | ||
'''RNA-Seq Tools Help''' | '''RNA-Seq Tools Help''' | ||
| − | *[ | + | *[http://beta.flybase.org/rnaseq/rnaseq RNA-Seq Overview] |
| + | *[http://beta.flybase.org/rnaseq/region RNA-Seq by Region] | ||
*[http://beta.flybase.org/rnaseq/profile_search RNA-Seq Profile] | *[http://beta.flybase.org/rnaseq/profile_search RNA-Seq Profile] | ||
*[http://beta.flybase.org/rnaseq/simsearch RNA-Seq Similarity] | *[http://beta.flybase.org/rnaseq/simsearch RNA-Seq Similarity] | ||
| − | |||
== '''Author Help''' == | == '''Author Help''' == | ||
*[[FlyBase:Author Guidelines | Author Guidelines]] | *[[FlyBase:Author Guidelines | Author Guidelines]] | ||
| + | *Fast Track Your Paper | ||
| + | *[http://beta.flybase.org/community FlyBase Community] | ||
| + | *[[FlyBase:Gene Snapshots | Gene Snapshots]] | ||
| + | *[[FlyBase:Links to and from FlyBase | Links to and from FlyBase]] | ||
| + | *[[FlyBase:Nomenclature | Nomenclature]] | ||
*[[FlyBase:Personal communications to FlyBase | Personal Communications to FlyBase]] | *[[FlyBase:Personal communications to FlyBase | Personal Communications to FlyBase]] | ||
| − | |||
| − | |||
Revision as of 18:49, 5 December 2017
Video Tutorials
- FlyBase Video Tutorials on YouTube organized into four playlists.
Basic navigation series
- How to find all data related to a gene
- How to generate an excel file of all alleles of a gene
- Finding related genes in FlyBase: Gene Groups
- Finding related genes/alleles in FlyBase: Vocabularies
- Finding related genes in FlyBase: The Gene Ontology
- Gene Snapshots in FlyBase
- Finding genes with similar phenotypes
Tools series
- RNA-Seq Part I: Using GBrowse
- RNA-Seq Part II: Using RNA-Seq Profile Search
- RNA Seq Part III: Searching for Similarly Expressed Genes
- Finding related genes/alleles in FlyBase: Vocabularies
- Using the Orthology search tool
- Finding related genes in FlyBase: The Gene Ontology
- Finding genes with similar phenotypes
RNA-Seq series
- RNA-Seq Part I: Using GBrowse
- RNA-Seq Part II: Using RNA-Seq Profile Search
- RNA Seq Part III: Searching for Similarly Expressed Genes
FlyBase Guidelines
Data Documentation
Curation
- Controlled Vocabularies used by FlyBase
- Gene Model Annotation Guidelines
- Gene Ontology (GO) Annotation
- Nontraditional alleles
- Vectors and Constructs
Field by Field guides to FlyBase Reports
- All Reports
- Aberration Report
- Allele Report
- Balancer/Genotype variant Report
- Cell Line Report
- Clone Report
- Gene Report
- Human Disease Model Report
- Image Report
- Insertion Report
- Interaction Report
- Large Dataset Metadata Report
- Natural Transposon Report
- Person Report
- Polypeptide Report
- Recombinant Construct Report
- Reference Report
- Sequence Feature Report
- Strain Report
- Stock Report
- Transcript Report
- Vocabularies Term Report
Computed Fields
Downloads
Tools Documentation
Tools Overview
Query Tools Help
Genomic/Map tools Help
- BLAST
- CytoSearch
- FeatureMapper
- FlyBase GBrowse Help
- GBrowse Tracks
- FlyBase JBrowse Help
- JBrowse Tracks
Retrieve/Convert Tools Help
- Batch Download
- Coordinate Converter
- ID Converter
- Sequence Downloader
RNA-Seq Tools Help