Ka-Kyung Kim

PyCon.KR
Lightning Talk
IPython으로 상호적, 재현 가능한 생물정보학 연구하기

Transcript

1. Ka-Kyung Kim IPythonਵ۽ ࢚ഐ੸, ੤അ оמೠ! ࢤޛ੿ࠁ೟ োҳೞӝ 2014.08.30 ӣо҃
2. Ka-Kyung Kim PyCon.KR 2014 Lightning Talk • 1960 ֙؀: ҅࢑ ࢤޛ೟੉ ؀فؼ ޖ۵ ؘ੉ఠ ࣁ౟ח ੘ওਵݴ, ױߔ૕ ࢲৌ਷ ࣻ੘সਸ ా೧ Dayho بхਵ۽ ੋࣧػ റ ੉റ CD-ROMী ߓನغ঻਺. • 1990 ֙؀: ࢤޛ੿ࠁ೟بٜ੉ ৈ۞ ౵૑৬ ࣁӐ੄ ѱ֧ਸ ನೣ ੼੼ ؊ ௾ ؘ੉ఠ ࣁ౟ܳ ࠙ࢳೞח झ೐ۨ٘ द౟ ೐۽Ӓ۔җ җ೟੸ੋ ࣗ೐౟ਝয ಁః૑ܳ ࢎਊ ೣ. • 2003 ֙: ੋр ѱ֧੄ ৡۄੋ ҕѐ৬ ೣԋ ੹ ѱ֧ द؀о ઙܐؽ. ޷Ҵ Ҵ݀ ࠁѤਗ (NIH) द௫य ҙ۲ ࢤޛী ૘઺੸ਵ۽ ై੗ೞৈ ઱ࢳী ب਑ਸ ષ. • 2000 ֙؀ ઺߈ : Sanger द௫य਷ ࡅܰҊ ੷۴ೠ ରࣁ؀ द௫य ӝࣿী ੄೧ ؀୓غয ࣻୌীࢲ ੹୓ ѱ֧੄ ੿ࠁܳ ݻ दрীࢲ ࣻੌਸ ా೧ оמೞѱ ೣ. ࢤ࢑ػ ࠻ ؘ੉ఠী ؀೧ࢲ ੗زച ߂ ഛ੢ࢿ੉ ਊ੉ೠ ҅࢑ بҳܳ ѐߊ઺੐. • ޷ې: 1,000׳۞ ѱ֧ द؀о ׮о১ী ٮۄ, ѐੋ ѱ֧ী ؀೧ ҕҕ ؘ੉ఠ߬੉झо ߧۈ ೡ Ѫ੉ݴ, ׮নೠ بҳ৬ ೣԋ ࠙ࢳ ೡ ࣻ੓ח ೂࠗೠ ੿ࠁ ࣗझܳ ઁҕ ೡ Ѫ੐. ژೠ, ױ ߔ૕୓೟, ؀ࢎ୓೟, ੄ܐ ੉޷૚, ജ҃ ઑѤ ؘ੉ఠ੄ ా೤ਸ ਤ೧ औѱ ࢎਊؼ ࣻ ੓਺. 1 ѱ֧ द؀ী ࢤޛ੿ࠁ೟ োҳ੄ ೙ਃࢿ ؀ف
3. Ka-Kyung Kim PyCon.KR 2014 Lightning Talk • ೙ਃࢿ: ؘ੉ఠ ࠙ࢳ੄ ಿ૕ਸ ബਯ੸ਵ۽ ઁযೞҊ, ҕز ੘সਸ ਊ੉ೞѱ ೞ ݴ, য۰਍ җઁ ѐߊ ೐۽Ӓ۔ ߂ ౵੉೐ۄੋਸ ੢ӝ੸ਵ۽ ਬ૑. ੘زਸ ੜ ೞ Ҋ, ੍ӝ ए਋ݴ పझ౟ ೞӝ ए਍ ೐۽Ӓې߁ ߑߨ੉ ೙ਃೣ. • ੢੼: ী۞о ૑ࣘ੸ਵ۽ ߊѼغҊ ࣻ੿ؼ ࣻ ੓ਵݴ, प೷पীࢲ Ѩૐਸ ਊ੉ೞ ب۾ ೣ. • IPython: Python, shell ݺ۸য, Rਸ ૑ਗೞݴ, ࢲ۽ ׮ܲ ೐۽Ӓ۔җ ೒ۖಬ ਸ ా೤ೞҊ ࠂ੟ೠ ࠙ࢳਸ ୊਺ࠗఠ ՘ө૑ ࣻ೯ೞѱ ೞח ജ҃ਸ ਤೠ ࢚ഐ੸ ஹೊ౴ ജ҃ 2 ੤അ оמೠ ࢤޛ ੿ࠁ೟ بҳ
4. Ka-Kyung Kim PyCon.KR 2014 Lightning Talk • 2011֙ Fernando Perzо IPython ೐۽ં౟ܳ द੘ೣ. • ؀ചഋ ஹೊ౴җ ࣗ೐౟ਝয ѐߊਸ ਤ೧ ୭੸੄ ࢤ࢑ࢿਸ ঳ب۾ ࢸ҅غ঻ਵݴ ୭Ӕ੄ җ೟҅࢑ਊ ౵੉ॆ ೐۽Ӓ۔ ઺ীࢲب ݒ਋ ઺ਃೠ بҳ. • 'ಞ૘-ஹ౵ੌ-प೯' ߑधࠁ׮ 'प೯-ఐ࢝' ߑधਸ ੢۰ೣ. ؘ੉ఠ ఐ࢝, प೷, য়ܨ ౸ة, ߈ࠂ, ౵ۄ޷ ఠ ୭੸ച ١ਸ ࡅܰѱ ୊ܻೡ ࣻ ੓਺. • ਍৔୓ઁ੄ ऌ, ౵ੌ दझమҗب ੜ ా೤غয ੓ਵݴ, ׮ܲ ೐۽Ӓې߁ ঱যܳ ࢲನ౴ ೣ (rmagic plugin, RPy2 library). • IPython notebook਷ ੹੗ ֢౟࠘җ ೐۽Ӓې߁ ജ҃ਸ ా೤ೞৈ, п ױ҅ীࢲ Ѿҗܳ ࠁҊ दпച ೞҊ ੷੢ ೡ ࣻ ੓ਵݴ, ֢౟৬ ௏ݭ౟ܳ ࢚ഐ੸ਵ۽ ୎о оמೞݴ ௿ܼ ೞա۽ ੹୓ ౵੉೐ۄੋਸ प೯ೡ ࣻ ੓਺. • ٮۄࢲ ࢤޛ੿ࠁ ࠙ࢳ੄ ࢤ࢑ࢿਸ ೱ࢚दఃҊ ੤അࢿਸ ذח׮. ! • See details at http://nbviewer.ipython.org/gist/irobii/014b8aa3574090a0d04a 3 IPython notebook
5. Ka-Kyung Kim PyCon.KR 2014 Lightning Talk • Pythonਸ ੉ਊೠ ࢤޛ੿ࠁ೟ झఠ٣! o Python Korea ૑ਗ! o ҳࢿਗ: BT, IT, Designer, बܻ೟੗, Ҵޙ೟੗ (ରܳ ইח੗৬ ਍੹ೞח ੗৬੄ ݅թ) o ੗ܐ: http://biopy.github.io http:// www.biopython.net ! • ߄੉য়झ೘ ழޭפ౭ ୹ߧ! o ߄੉য় + ֱҗ೟ী ҙब੉ ੓ח, पणഋ झఠ٣ ழޭפ౭! o ழޭפ౭: https://www.facebook.com/ groups/biospin/ o ಕ੉૑: https://www.facebook.com/ biospintalk 4 BioPython study
6. Ka-Kyung Kim PyCon.KR 2014 Lightning Talk • Cumulative histogram: ݃੉௼۽ RNA੄ ఋѶ ࢎ੉౟ ਬഋী ٮܲ mRNA ߊഅ ಁ ఢਸ Kolmogorov–Smirnov (KS) పझ౟৬ ־੸ ࠺ਯ۽ بधച ೠ ৘! • ҳഅ: http://nbviewer.ipython.org/gist/irobii/8e96a4834dc6993a25e2 ! • ߑߨ: Ipython notebookীࢲ दпചܳ ਤ೧ matplot library৬ җ೟ ো࢑੉ оמ ೠ scipy੄ ks_2samp ӝמਸ ࢎਊ ! • Ѿۿ: ӝઓ੄ ুࣄীࢲ੄ ੘সਸ ੗زച ೡ ࣻ ੓঻ਵݴ, IPython notebook ղীࢲ Ѿҗ чਸ ഛੋೞҊ दпചо оמೣ. 5 ࢚ഐ੸, ੤അ оמೠ ࢤޛ ੿ࠁ োҳ੄ ৘
7. Ka-Kyung Kim хࢎ೤פ׮ email: kakyung.kim@gmail.com