Getting started in the FANC community
This page contains information for the community of labs that are collaborating to proofread the FANC connectome.
- PI/Project lead: Invite the person to fanc-reconstruction.slack.com by clicking on the "FANC Community" title in the top-left of Slack, then clicking "Invite people to FANC Community" (see screenshot below). A community manager will approve the invite.
- New member: Update your Slack display name to include your lab name, e.g.
Jasper Phelps (Ramdya Lab). To do this, click on your own name while in Slack, then press “edit profile” add([X] Lab)to the end of your “Display name”. (Make sure you set your "Display name", not your "Full name"!) - New member: Join all the Slack channels (or at the very least join #neuron-gallery, #proofreading-access, #proofreading-help, and #proofreading-projects).
- PI/Project lead or new member: Add the new member's name and contact email to the FANC contact sheet.
- Read the Community Code of Conduct.
Now that the automated reconstructions are available, most community members will want to work only in Neuroglancer (see section below) and so this section is likely to not be relevant to most users.
Click to expand CATMAID section
- After going through the material above, ask Wei or Jasper to create a CATMAID account for you.
- CATMAID link for accessing the collaborative tracing project
- Example CATMAID analysis code on GitHub
- Be sure you have read the Community Code of Conduct.
- Put a thumbs up on this Slack post (screenshot below) to indicate you have read and agree to follow the Code of Conduct.
If you want to view the latest version of the FANC connectome, but you don't yet need permissions to proofread yourself, you can skip the proofreading training below. Instead, add your email to this Slack thread and a community manager will give you viewing access.
- Open up the FANC sandbox, pressing "Login" on the bottom bar if necessary, so that you see a page that looks like this:
- Read through FlyWire's Spelunker 101 blog post to learn how to use this version of neuroglancer.
- Go through some of the FlyWire training materials. The sections we recommend focusing on are:
- Glossary of Fly Ultrastructure and Morphology
- Basic Navigation (Video - 9:17)
- Annotations (Video - 2:16)
- Proofreading (Video - 35:33)
- Faster proofreading
- To trace, or not to trace? How to know when your cell is finished
- Practice proofreading for at least an hour using the sandbox, a for-practice-only version of the dataset that will never be used for anything other than practice. You can do merge and split operations on random neurons to get comfortable using the tools, then start looking around for segments that actually need proofreading done on them to look like a proper neuron (e.g. segments that don't have a soma, an axon, or dendrites, or there appear to be multiple neurons or glia falsely assigned to the same segment)
- Read through What happens during a proofreading test
- Once you've completed the steps above – your name and info are on the FANC contact sheet, your Slack display name includes your lab name, you read the community guidelines and put a thumbs up on the Slack post linked above to indicate you agree to follow them, and you practiced proofreading in the FANC sandbox for at least an hour – please send a message to Jasper Phelps on the FANC Community slack workspace to request proofreading access. You will need to take a proofreading test with Jasper or another project leader, unless you already took and passed a proofreading test from a member of the Flywire team.
- Once you've completed these steps, a community manager will grant you access. The neuroglancer link for accessing the collaborative proofreading project can be found on the Neuroglancer states for proofreading page.