Rにおけるバイオ画像解析入門

211104 @ BioC Asia 2021 Workshop
Introduction to Bioimage Analysis in R

This workshop covers basic methods of the image processing and image analysis in R using the Bioconductor package “EBImage” and the Orchestra platform. In addition, the image dataset is obtained from ExperimentHub using the “BioImageDbs” package. Using this dataset, we perform a supervised image segmentation using the U-NET model, one of deep learning models, provided by the rMiW package.

このワークショップでは、BioconductorパッケージであるEBImageを使って、Rでの画像処理・画像解析の基本的な方法を扱う。次に、BioImageDbsパッケージを用いて、ExperimentHubからの画像データの取得を行う。さらに、rMiWパッケージが提供する、Deep learningモデルの１つであるU-NETモデルを用いて、教師有り画像セグメンテーション（領域分割）を学び。このワークショップは、Orchestra環境にて実施する。

Transcript

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   ػցֶश༻ͷڭࢣϥϕϧ෇͖ͷը૾ΞϨΠσʔλΛఏڙ͢Δ #JPDPOEVDUPS&YQFSJNFOU)VCύοέʔδ S.J8
   ։ൃதɺۙʑ #JPDPOEVDUPSʹొ࿥༧ఆ ݦඍڸը૾σʔλͷղੳϫʔΫϑϩʔΛఏڙ͢Δύοέʔδ όοΫΤϯυ
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9. ओʹ࢖༻͢Δύοέʔδ #JP*NBHF%CT
   ػցֶश༻ͷڭࢣϥϕϧ෇͖ͷը૾ΞϨΠσʔλΛఏڙ͢Δ #JPDPOEVDUPS&YQFSJNFOU)VCύοέʔδ S.J8
   ։ൃதɺۙʑ #JPDPOEVDUPSʹొ࿥༧ఆ ݦඍڸը૾σʔλͷղੳϫʔΫϑϩʔΛఏڙ͢Δύοέʔδ όοΫΤϯυ
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10. &#*NBHF
    3Ͱը૾ॲཧΛߦ͏ͨΊͷؔ਺܈ جຊؔ਺ ը૾ͷಡΈࠐΈ
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11. ࣮ߦྫ  
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12. ࣮ߦྫ  
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14. ࣮ߦྫ   ը૾ͷॏͶ߹Θͤ
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16. ओʹ࢖༻͢Δύοέʔδ #JP*NBHF%CT
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    ։ൃதɺۙʑ #JPDPOEVDUPSʹొ࿥༧ఆ ݦඍڸը૾σʔλͷղੳϫʔΫϑϩʔΛఏڙ͢Δύοέʔδ όοΫΤϯυ
    LFSBT
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    &#*NBHF &#*NBHF 3Ͱجຊతͳը૾ॲཧΛߦ͏ͨΊͷؔ਺܈Λఏڙ͢Δ #JPDPOEVDUPSύοέʔδ
17. #JP*NBHF%CTͷίϯηϓτ ʙ 3্Ͱڭࢣϥϕϧ෇͖ͷΞϨΠσʔλʹ؆୯ΞΫηε ʙ ը૾σʔλϦϙδτϦ ɾ ը૾ϦϙδτϦʹΑͬͯɺϑΥʔϚοτ͕όϥόϥɻ ɾ ը૾σʔλ UP
    %%ςϯιϧ΁ͷม׵ϓϩάϥϜΛ౎౓ॻ͘ͷ͸໘౗ ɾ ౷Ұ͞Εͨ3ϑΥʔϚοτ FH
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    MFBSOJOH ʹ࢖͏ -JTUܗࣜ 3
    BSSBZT ݁߹ 3
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22. 3
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23. 5FOTPS'MPX
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25. 6/&5 Ϟσϧ $POUSBDUJOH
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28. ʲ Ϟσϧߏஙͷ5JQT
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29. ʲ $PNQJMF
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30. 
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    ʳσΟʔϓϥʔχϯά Λ༻͍ͨը૾ղੳ8'ྫ %-ֶश 
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    Ϟσϧͷݕূʢςετ
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31. ͦΕͰ͸ɺ ࣮ࡍͷ3ίʔυΛΈ͍͖ͯ·͢
32. ิ଍
33. UGBEEPOT
    *OUFSGBDF
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34. IUUQTXXXTMJEFTIBSFOFU#JPQIZTJDT0TBLBCJPQBDLBUIPOTT 35FOTPS'MPX ·ͱΊࢿྉ
35. IUUQTHJUIVCDPN"/5T9"/5T3/FU /FVSPDPOEVDUPS IUUQTOFVSPDPOEVDUPSPSH ؔ࿈ύοέʔδ /JDIPMBT
    +
    5VTUJTPO FU
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    4DJFOUJGJD
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