Difference between revisions of "FlyBase:FlyBase Help Index"

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== '''New to Flies''' ==
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'''Useful Guides for Drosophila Research'''
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*[[FlyBase:New_to_Flies | New to Flies links]]
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== '''Tweetorials''' ==
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'''Topic-specific FlyBase Tweetorials'''
 +
*[[FlyBase:Tweetorial | All Tweetorials]]
  
 
== '''Video Tutorials''' ==
 
== '''Video Tutorials''' ==
  
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*[https://www.youtube.com/user/FlyBaseDB FlyBase Video Tutorials]
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*[https://www.youtube.com/channel/UCG-KSNq46vkezAwbrVQojYA/videos FlyBase Video Tutorials] on YouTube organized into four playlists.
  
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== '''Data Documentation''' ==
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'''Basic navigation series
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'''
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*[https://www.youtube.com/watch?v=OlHv3zWt5cw How to find all data related to a gene]
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*[https://www.youtube.com/watch?v=xACOH8SYpoQ&t=60s How to generate an excel file of all alleles of a gene]
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*[https://www.youtube.com/watch?v=GQ_2X29Gx-E Finding related genes in FlyBase: Gene Groups]
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*[https://www.youtube.com/watch?v=jgCON15SiRo Finding related genes/alleles in FlyBase: Vocabularies]
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*[https://www.youtube.com/watch?v=XFCR8BRfGp0 Finding related genes in FlyBase: The Gene Ontology]
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*[https://www.youtube.com/watch?v=6IDlJGXdIP8 Gene Snapshots in FlyBase]
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*[https://www.youtube.com/watch?v=hZgsDPypZvk Finding genes with similar phenotypes]
  
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'''Curation Conventions'''
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'''Tools series
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*[[FlyBase:Controlled vocabularies used by FlyBase | Controlled vocabularies used by FlyBase]]
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'''
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*[[FlyBase:Nontraditional alleles | Nontraditional alleles]]
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*[https://www.youtube.com/watch?v=KpJVkopUBDM&t=107s RNA-Seq Part I: Using GBrowse] -- <span style="color:red"> Warning: The GBrowse genome viewer has been updated to JBrowse, but techniques shown here are still useful in JBrowse.</span>
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*[[FlyBase:Vectors and Constructs | Vectors and Constructs]]
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*[https://www.youtube.com/watch?v=Ho_PZ4XB8y8&t=17s RNA-Seq Part II: Using RNA-Seq Profile Search]
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*[[FlyBase:Gene Ontology (GO) Annotation | Gene Ontology (GO) Annotation]]
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*[https://www.youtube.com/watch?v=mcMpRxeX-KY RNA Seq Part III: Searching for Similarly Expressed Genes]
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*[https://www.youtube.com/watch?v=jgCON15SiRo Finding related genes/alleles in FlyBase: Vocabularies]
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*[https://www.youtube.com/watch?v=JsNyrNG28M0 Using the Orthology search tool]
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*[https://www.youtube.com/watch?v=XFCR8BRfGp0 Finding related genes in FlyBase: The Gene Ontology]
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*[https://www.youtube.com/watch?v=hZgsDPypZvk Finding genes with similar phenotypes]
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'''RNA-Seq series
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'''
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*[https://www.youtube.com/watch?v=KpJVkopUBDM&t=107s RNA-Seq Part I: Using GBrowse] -- <span style="color:red"> Warning: The GBrowse genome viewer has been updated to JBrowse, but techniques shown here are still useful in JBrowse.</span>
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*[https://www.youtube.com/watch?v=Ho_PZ4XB8y8&t=17s RNA-Seq Part II: Using RNA-Seq Profile Search]
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*[https://www.youtube.com/watch?v=mcMpRxeX-KY RNA Seq Part III: Searching for Similarly Expressed Genes]
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'''FlyBase Guidelines
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'''
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*[https://www.youtube.com/watch?v=HsoWqclXMng Author Guidelines]
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*[https://www.youtube.com/watch?v=16SGlcASOL4 How to cite FlyBase]
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== '''Report Help''' ==
  
 
'''Field by Field guides to FlyBase Reports'''
 
'''Field by Field guides to FlyBase Reports'''
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*[[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]]
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*[[FlyBase:Cell Line Report | Cell Line Report]]
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*[[FlyBase:Chemical | Chemical Report]]
 
*[[FlyBase:Clone Report | Clone Report]]
 
*[[FlyBase:Clone Report | Clone Report]]
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*[[FlyBase:Cell Line Report | Cell Line Report]]
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*[[FlyBase:Vocabularies | CV (Controlled Vocabulary) Term Report]]
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*[[FlyBase:Dataset-Collection Report | Dataset/Collection Report]]
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*[[FlyBase:Experimental Tool | Experimental Tool Report]]
 
*[[FlyBase:Gene Report | Gene Report]]
 
*[[FlyBase:Gene Report | Gene Report]]
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*[[FlyBase:Gene Group Report | Gene Group Report]]
 
*[[FlyBase:Human Disease Report | Human Disease Model Report]]
 
*[[FlyBase:Human Disease Report | Human Disease Model Report]]
 
*[[FlyBase:Image Report | Image Report]]
 
*[[FlyBase:Image Report | Image Report]]
 
*[[FlyBase:Insertion Report | Insertion Report]]
 
*[[FlyBase:Insertion Report | Insertion Report]]
 
*[[FlyBase:Interaction Report | Interaction Report]]
 
*[[FlyBase:Interaction Report | Interaction Report]]
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*[[FlyBase:Large Dataset Metadata Report | Large Dataset Metadata Report]]
 
 
*[[FlyBase:Natural Transposon Report | Natural Transposon Report]]
 
*[[FlyBase:Natural Transposon Report | Natural Transposon Report]]
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*[[FlyBase:Person Report | Person Report]]
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*[[FlyBase:Pathway_Report | Pathway Report]]
 
*[[FlyBase:Polypeptide Report | Polypeptide Report]]
 
*[[FlyBase:Polypeptide Report | Polypeptide Report]]
 
*[[FlyBase:Recombinant Construct Report | Recombinant Construct Report]]
 
*[[FlyBase:Recombinant Construct Report | Recombinant Construct Report]]
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*[[FlyBase:Stock Report | Stock Report]]
 
*[[FlyBase:Stock Report | Stock Report]]
 
*[[FlyBase:Transcript Report | Transcript Report]]
 
*[[FlyBase:Transcript Report | Transcript Report]]
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*[[FlyBase:Vocabularies | Vocabularies Term Report]]
 
  
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'''Computed Fields'''
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*[[FlyBase:Computed cytological data | Computed Cytological data]]
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*[[FlyBase:Computed Feature type of genes | Computed Feature type of genes]]
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*[[FlyBase:Computed cytological data | Computed cytological data]]
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== '''Curation Documentation''' ==
 +
 
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*[[FlyBase:Controlled vocabularies used by FlyBase | Controlled Vocabularies used by FlyBase]]
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*[[FlyBase:Gene Model Annotation Guidelines | Gene Model Annotation Guidelines]]
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*[[FlyBase:Gene Ontology (GO) Annotation | Gene Ontology (GO) Annotation]]
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*[[FlyBase:Nontraditional alleles | Nontraditional alleles]]
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*[[FlyBase:Vectors and Constructs | Comonly used Vectors and Constructs]]
  
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'''Downloads'''
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== '''Tools and Downloads Documentation''' ==
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*[[FlyBase:Downloads Overview | Downloads Overview]]
 
  
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== '''Tools Documentation''' ==
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'''Tools Overview'''
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*[[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]]
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*[[FlyBase:QuickSearch | FlyBase QuickSearch]]
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*[[FlyBase:QueryBuilder Help | QueryBuilder]]
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*[http://beta.flybase.org/cgi-bin/qb.pl QueryBuilder]
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*[[FlyBase:QuickSearch | QuickSearch]]
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*[http://beta.flybase.org/vocabularies Vocabularies]
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*[[FlyBase:Vocabularies Tool | Vocabularies Tool]]
  
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'''Genomic/Map tools Help
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'''Genomic/Map Tools Help
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'''
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* [[FlyBase:Tools_Overview#BLAST | BLAST]]
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* [[FlyBase:CytoSearch | CytoSearch]]
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* [[FlyBase:Feature Mapper | Feature Mapper]]
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* [[FlyBase:JBrowse | FlyBase JBrowse Help]]
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* [[FlyBase:JBrowse Tracks | JBrowse Tracks]]
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* [[FlyBase:modENCODE data at FlyBase | modENCODE data at FlyBase]]
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'''Tools for Archived Instances of FlyBase earlier than FB2022_05
 
'''
 
'''
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* BLAST
 
 
* [[FlyBase:GBrowse | FlyBase GBrowse Help]]
 
* [[FlyBase:GBrowse | FlyBase GBrowse Help]]
 
* [[FlyBase:GBrowse Tracks | GBrowse Tracks]]
 
* [[FlyBase:GBrowse Tracks | GBrowse Tracks]]
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* [[FlyBase:JBrowse | FlyBase JBrowse Help]]
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* [[FlyBase:Differences between JBrowse and GBrowse on FlyBase | Feature differences between JBrowse and GBrowse on FlyBase]]
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* [[FlyBase:JBrowse Tracks | JBrowse Tracks]]
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* [[FlyBase:Complete list of GBrowse/JBrowse Track Differences | Complete list of GBrowse/JBrowse Data Track Differences]]
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* [http://beta.flybase.org/cytosearrch CytoSearch]
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* [[FlyBase:Using FTP Archives | Using FTP Archives]]
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* [http://beta.flybase.org/featuremapper FeatureMapper]
 
  
 
'''Retrieve/Convert Tools Help'''
 
'''Retrieve/Convert Tools Help'''
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*[http://beta.flybase.org/batchdownload | Batch Download]
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* [[FlyBase:Batch Download | Batch Download]]
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* Coordinate Converter
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* [[FlyBase:Coordinate Converter | Coordinate Converter]]
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* ID Converter  
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* [[FlyBase:ID_Converter | ID Converter ]]
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* Sequence Downloader
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* [[FlyBase:SequenceDownloader | Sequence Downloader ]]
  
 
'''RNA-Seq Tools Help'''
 
'''RNA-Seq Tools Help'''
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*[[FlyBase:Tools Overview |Tools Overview]]
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* [[FlyBase:RNA-Seq Overview | RNA-Seq Overview]]
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*[http://beta.flybase.org/rnaseq/profile_search RNA-Seq Profile]
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* [http://{{flybaseorg}}/rnaseq/region RNA-Seq by Region]
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*[http://beta.flybase.org/rnaseq/simsearch RNA-Seq Similarity]
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* [http://{{flybaseorg}}/rnaseq/profile_search RNA-Seq Profile]
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*[http://beta.flybase.org/rnaseq/region RNA-Seq by Region]
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* [http://{{flybaseorg}}/rnaseq/simsearch RNA-Seq Similarity]
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'''Downloads'''
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*[[FlyBase:Downloads Overview | Downloads Overview]]
  
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== '''Author Help''' ==
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== '''Information for Authors''' ==
  
 
*[[FlyBase:Author Guidelines | Author Guidelines]]
 
*[[FlyBase:Author Guidelines | Author Guidelines]]
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*[[FlyBase:About#Citing_FlyBase | Citing FlyBase]]
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*[[FlyBase:Fast Track Your Paper | Fast Track Your Paper]]
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*[http://beta.flybase.org/community FlyBase Community]
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*[[FlyBase:Gene Snapshots | Gene Snapshots]]
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*[[FlyBase:Nomenclature | Nomenclature]]
 
*[[FlyBase:Personal communications to FlyBase | Personal Communications to FlyBase]]
 
*[[FlyBase:Personal communications to FlyBase | Personal Communications to FlyBase]]
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*[[FlyBase:Nomenclature | Nomenclature]]
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== '''Other Help''' ==
 +
 
 +
*[[FlyBase:FAQ | FlyBase FAQ]]
 
*[[FlyBase:Links to and from FlyBase | Links to and from FlyBase]]
 
*[[FlyBase:Links to and from FlyBase | Links to and from FlyBase]]
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*[[FlyBase:FlyBase Website Access Fee FAQ | FlyBase Website Access Fee FAQ]]
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*[[FlyBase:Community Advisory Group | FlyBase Community Advisory Group]]
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*[[FlyBase:FlyBase Guides: Pamphlets, Powerpoints, and Posters | FlyBase Guides: Pamphlets, Powerpoints, and Posters]]
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*[[FlyBase:Fly Board| Fly Board]]
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*[[FlyBase:Papers with technical advances | Papers with technical advances]]
 +
*[[FlyBase:CitationAndGuides | Papers to cite when using FlyBase]]

Latest revision as of 16:26, 11 January 2024

New to Flies

Useful Guides for Drosophila Research

Tweetorials

Topic-specific FlyBase Tweetorials

Video Tutorials

Basic navigation series

Tools series

RNA-Seq series

FlyBase Guidelines

Report Help

Field by Field guides to FlyBase Reports

Curation Documentation

Tools and Downloads Documentation

Tools Overview

Query Tools Help

Genomic/Map Tools Help

Tools for Archived Instances of FlyBase earlier than FB2022_05

Retrieve/Convert Tools Help

RNA-Seq Tools Help

Downloads

Information for Authors

Other Help

Retrieved from "https://wiki.flybase.org/mediawiki/index.php?title=FlyBase:FlyBase_Help_Index&oldid=172652"