Bioinformatics meets Go

Pros/Cons of Go in Non-Web context, and the way how to make carrier as a programmer and survive.

Transcript

1. Bio- informatics meets Go #gocon 2017 Autumn @otiai10
2. whoami • 落合展 ◦ github.com/otiai10 ◦ DRYな備忘録 ◦ WETな備忘録 • Prev: Dev Agency in Deu. (RoR, Swift, React/ReactNative) • Now: Academical Inst. (Go, Electron)
3. Product we’re making Genome Analysis Platform “SeqPod” is a desktop app for non-IT biologists, by which they can easily execute massive and complex analysis. is a protocol for bioinformaticians, by which they can easily publish workflows: and cli tools for that.
4. Product we’re making Genome Analysis Platform “SeqPod” is a desktop app for non-IT biologists, by which they can easily execute massive and complex analysis. is a protocol for bioinformaticians, by which they can easily publish workflows: and cli tools for that. なにつくってんの
5. Product we’re making Genome Analysis Platform “SeqPod” is a desktop app for non-IT biologists, by which they can easily execute massive and complex analysis. is a protocol for bioinformaticians, by which they can easily publish workflows: and cli tools for that. なにつくってんの Bio- informatics meets Go
6. Bio- informatics meets Go Pros
7. Easy to Write • Static Types ◦ Support by Editors ▪ GoLand ▪ Atom + go-plus + … ▪ Vim + vim-go ▪ etc … • even fast compiling ←
8. Fast Enough • Fast itself // TODO: source required • Need to parse huge sized files ◦ DNA, RNA, Proteins… ~10TB • by using massive “Super Computer” ◦ CPU cores: 1200 ◦ Memory max: 2TB ◦ Disk: 12PiB • Good match to write goroutines ◦ all I can use!!
9. Portability • Go itself ◦ easy to start writing Go, just with locating go/src and setting PATH • To deliver CLI tools to customers ◦ Amazing Cross Compiling ◦ you can shut them up who always say “it doesn’t work in my Python version”
10. Bio- informatics meets Go Cons
11. Nobody Helps Especially in Japan https://github.com/seqpod
12. Packages Missing https://github.com/search?q =bioinformatics&type=Repo sitories
13. Ambiguity of Biology
14. Ambiguity of Biology • ex) File extensions ◦ .fasta .fa .fna .ffn .faa .fra ◦ are ALL THE SAME THING • One of global standard data structure of Bio ◦ has a field which is dictionaries sometimes, lists sometimes, array of list sometimes, or simple strings sometimes ▪ so hard to decode to Go struct ;(
15. Wrapping up feelings Go in Bio-info
16. Wrapping up feelings Go in Bio-info Non-Web Context
17. Wrapping up feelings Go in Bio-info Non-Web Context 1. First-mover Advantage
18. Wrapping up feelings Go in Bio-info Non-Web Context 1. First-mover Advantage 2. Good match with strict protocoled industry/market
19. Wrapping up feelings Go in Bio-info Non-Web Context 1. First-mover Advantage 2. Good match with strict protocoled industry/market 3. Excellently Easy to deliver CLI a. Even for server application, GAE/Go is very good for private web-app, cz it’s so economic
20. 1. First-mover Advantage 2. Good match with strict protocoled industry/market 3. Excellently Easy to deliver CLI a. Even for server application, GAE/Go is very good for private web-app, cz it’s so economic 4. Except for low salary Wrapping up feelings Go in Bio-info Non-Web Context
21. 終わ
22. 終わ らない
23. How to make carrier and SURVIVE
24. Salary is God
25. Salary is /Go{1,2}d?/
26. すなわち インカム
27. 学習
28. 習得
29. NOT ONLY
30. BUT ALSO
31. どう 活かすか
32. どう 活かすか
33. How to Leverage
34. 不足
35. 経歴
36. insufficiency
37. 即ち 個性
38. 即ち 希少性
39. insufficiency is identity and rarity
40. 「もっと◯◯だったら...」
41. 否
42. ◯◯ではないこと （□□であること） が優位性となる フィールドがある
43. はず
44. たぶん
45. ◯◯ではないこと （□□であること）
46. is Shape of Life
47. Shape of Life
48. シェイプ オブ ライフ
49. insufficiency shape
50. Shape of Life
51. Be yourself and Respect the shape of your life
52. to get money
53. BUT ALSO
54. to be happy
55. thank you!