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James Ferguson Profile
James Ferguson

@Psy_Fer_

Followers
4K
Following
35K
Statuses
14K

Bioinformatician/Genomics Software Engineer @GarvanInstitute, Views my own. Mastodon @[email protected], https://t.co/K5efuEeBwt

Sydney, New South Wales
Joined August 2016
Don't wanna be here? Send us removal request.
@Psy_Fer_
James Ferguson
3 years
Great way to start the new year, with our platform specific file format for @nanopore signal data, SLOW5. Better compression, faster analysis, easy to use and read, slow5tools for conversion to and from fast5, and a rich API for devs.
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@Psy_Fer_
James Ferguson
8 hours
@WAJ_Webster @The__Taybor Good marketing tbh 😅
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@Psy_Fer_
James Ferguson
14 hours
@The__Taybor Oh i see this is a thread. Yes, all of that stuff is true.
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@Psy_Fer_
James Ferguson
2 days
@JeolyMoley @DoctorKarl If you are only going to read headlines, read the whole headline "COVID-19 Vaccine AstraZeneca confirms 100% protection against severe disease, hospitalisation and death in the primary analysis of Phase III trials"
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@Psy_Fer_
James Ferguson
5 days
@jpelbers yep. Download it with dorado, then use the --dorado_model_path argument to point to it. (have yet to test this specifically with v5.0.0, but ONT tells me it should work lol. Let me know if you try it. It's on my list.
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@Psy_Fer_
James Ferguson
6 days
@vellamike @OscarGenomics @nanopore @iiSeymour ahh, that's where the cutoff is. thanks for catching that.
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@Psy_Fer_
James Ferguson
7 days
@noamteyssier this is cool! nice work
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@Psy_Fer_
James Ferguson
7 days
@vellamike @OscarGenomics @nanopore @iiSeymour If I recall, 4.3.0 is for 5khz data, while 4.2.0 is for the older 4khz data. So you defs wanna be using the right one that matches what you basecalled with (and that your basecalling model was correct as well)
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@Psy_Fer_
James Ferguson
8 days
Only 2 weeks left to get legislation through before the next election in Australia to protect anyone who engages with genetic and genomic research from having to worry about it impacting their insurance. Please urge your local MP to make this happen
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@Psy_Fer_
James Ferguson
11 days
@curious_coding if not_special_case { ...} 😅😆
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@Psy_Fer_
James Ferguson
11 days
blue-crab v0.3.0 has now been released and on pypi pip install blue-crab==0.3.0 - update error handling and add Anakin Supervisor - Add end_reason analysis_config_change - tested with latest version of pod5 v0.3.23
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@Psy_Fer_
James Ferguson
18 days
@angie_rasmussen They don't even give you access the journal you reviewed for. Half the time I can't read the paper I reviewed. Utterly ridiculous.
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@Psy_Fer_
James Ferguson
19 days
@martinalexsmith @ramacgenomics @nanopore @AftershockpcAU What are the temps like on those GPUs under sup calling?
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@Psy_Fer_
James Ferguson
19 days
@AftershockpcAU @martinalexsmith @ramacgenomics @nanopore You built a beautiful machine. Props to your team.
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@Psy_Fer_
James Ferguson
21 days
RT @GDiensthuber: How has native RNA sequencing contributed to epitranscriptomic research? This is one of the main questions we addressed i…
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@Psy_Fer_
James Ferguson
23 days
@lukeweston a coke 2L bottle is more scalable
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@Psy_Fer_
James Ferguson
23 days
RT @flo_mask: Every superhero has an origin story. Designing a better mask due to California wildfires was ours. Today, we're supporting ou…
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@Psy_Fer_
James Ferguson
24 days
@AhmadAlKhleifat @NIHRMaudsleyBRC @psychgenomics @kingsmnd @nanopore @Kings_SGDP_Lab @SGDPCentreKCL @KingsIoPPN @AlfredoIacoange @AmmarAlChalabi Epic. I wonder what the decibel level is in there when everything is running full tilt and if there is hearing protection. Also what's the temperature behind those towers?
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@Psy_Fer_
James Ferguson
25 days
RT @EtienneMasle: Hi, I'm looking for a highly-motivated research assistant to help with cutting-edge studies of arthritis. Join my team o…
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