mikemc/vivo-vitro

Issues

• Create a table with 2021 DNA concentration measurements

  #25 opened 3 years ago by mikemc
  0

• Back up and document data from sequencing centers

  #24 opened 3 years ago by mikemc
  2

• Investigate v2_A2_ASV60

  #23 opened 3 years ago by mikemc
  1

• Edit 2021 experiment illustration to reflect the final experiment

  #21 opened 3 years ago by mikemc
  1

• Import measurements and sample data for the 2021 experiment

  #22 opened 3 years ago by mikemc
  1

• Create sample submission forms for sequencing centers

  #20 opened 3 years ago by mikemc
  0

• Examine E. coli Nissle vs. HS differential bias in the shotgun data

  #5 opened 3 years ago by mikemc
  1

• Create best estimate of compositional difference between fecal and inoculum specimens

  #13 opened 3 years ago by mikemc
  1

• Request quotes from sequencing centers for follow-up experiment

  #4 opened 3 years ago by mikemc
  0

• Confirm absence of effect of aliquot number in fecal samples

  #15 opened 3 years ago by mikemc
  1

• Add notes to sample metadata

  #19 opened 4 years ago by mikemc
  0

• Import illustrations

  #11 opened 4 years ago by mikemc
  1

• Develop predictive model of DNA yield in terms of number of inoculum or T. mobilis pellets in first experiment

  #14 opened 4 years ago by mikemc
  0

• Create functions for importing microbiome data

  #2 opened 4 years ago by mikemc
  1

• Determine mixing volumes for the mock communities for the follow-up

  #12 opened 4 years ago by mikemc
  0

• Import OD measurements from 2019 experiment

  #18 opened 4 years ago by mikemc
  1

• Import experiment schematic illustrations

  #17 opened 4 years ago by mikemc
  1

• Add host reads to shotgun count tables

  #8 opened 4 years ago by mikemc
  1

• Create new variables for the sample metadata

  #16 opened 4 years ago by mikemc
  0

• Upload sequence reads to the SRA

  #6 opened 4 years ago by mikemc
  0

• Add MD5s of raw and intermediate sequencing-read files

  #7 opened 4 years ago by mikemc
  0

• Evaluate internal contamination as a potential explanation for observed variation in differential bias

  #9 opened 4 years ago by mikemc
  0

• List and explain possible explanations for variation in differential bias between specimen types

  #10 opened 4 years ago by mikemc
  0

• redo Silva taxonomy assignment

  #1 opened 4 years ago by mikemc
  0

• Create Distill site for viewing analyses

  #3 opened 4 years ago by mikemc
  0