urol-e5 timeseries issues

urol-e5 / timeseries

Data generated from e5 time series sampling in Moorea

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Omic priorities for time series samples..

#71 sr320 opened 1 day ago
0
Price metabolomics and lipidomics options

#70 AHuffmyer opened 2 days ago
0
Select timeseries samples for sequencing and molecular analyses

#69 AHuffmyer opened 1 month ago
13
Try AFDW and DW calculations based on HP script

#68 AHuffmyer opened 1 month ago
0
Add POC mtORF and POR H2 sequences to NCBI

#66 AHuffmyer closed 2 months ago
2
Process remaining samples for E5 time series species identification

#65 AHuffmyer closed 3 months ago
6
Reamplify and resequence 2 Porites samples for E5 timeseries that failed first round of species ID

#64 AHuffmyer closed 3 months ago
1
Pocillopora histone samples that need to be done

#63 AHuffmyer closed 3 months ago
1
Porites PCR/RFLP samples that need to be done

#62 AHuffmyer closed 3 months ago
1
Discuss next steps for analysis given differential effects of haplotype on physiology and ITS2

#61 AHuffmyer closed 1 month ago
1
Add ITS2 library prep, sequencing, and SymPortal methods to manuscript

#60 AHuffmyer opened 5 months ago
0
ITS2 sample metadata confirmation

#59 hputnam opened 5 months ago
1
Filter all univariate responses to be only complete cases for colonies used for multivariate analyses

#58 AHuffmyer closed 4 months ago
1
Update README to direct to updated accurate metadata and analyses

#57 AHuffmyer closed 5 months ago
1
Identify species for all time series corals

#56 AHuffmyer closed 3 months ago
2
NAs in data

#55 jrcunning closed 6 months ago
2
Generate revised figures for publication with Ik and Ic values

#54 AHuffmyer closed 6 months ago
0
Generate summary tables for univariate models, PERMANOVAS, RDA models, and variance partitioning

#53 AHuffmyer closed 6 months ago
0
Add Ik and Ic metrics to all analyses

#52 AHuffmyer closed 10 months ago
0
Add Ik and Ic calculations to PI curve code

#51 AHuffmyer closed 10 months ago
5
Add R2 calculation to phys metrics standard curves

#50 AHuffmyer opened 10 months ago
1
Incorrect percentage fraction labels on variance partitioning plots

#49 AHuffmyer closed 10 months ago
1
Make a list of all time series colonies available at every time point with good RNA and DNA

#48 hputnam opened 1 year ago
2
Calculate offset from on land light logger data to site loggers

#47 AHuffmyer closed 6 months ago
0
Add individual colony trajectory lines onto trajectory PCAs

#46 AHuffmyer closed 11 months ago
0
Plot physiological metrics as a function of temperature

#45 AHuffmyer closed 10 months ago
0
Try calculating plasticity from PCA plots using dispersion rather than euclidian distance for each colony

#44 AHuffmyer closed 1 year ago
2
Discussion: Best biomass normalizers?

#43 AHuffmyer closed 1 year ago
1
Getting errors in PI curve scripts - need to qc and run all pi scripts for all timepoints

#42 AHuffmyer closed 2 years ago
3
Missing biomass data for TP4

#41 AHuffmyer closed 2 years ago
1
ACR231 and ACR237 discrepancy

#40 AHuffmyer closed 2 years ago
1
Missing Protein Values for Nov-2020

#39 dconetta closed 2 years ago
0
Round 2 of QC of all scripts

#38 AHuffmyer closed 2 years ago
2
Check Biomass calculations between host and sym

#37 hputnam closed 2 years ago
7
Confirm Molecular Backup Notes

#36 hputnam opened 2 years ago
3
PI Curve AQY values much higher in TP 4 across all species than other time points

#35 AHuffmyer closed 3 years ago
2
Error in pi_curve_rates.rmd script for TP4 in lines 122-127

#34 AHuffmyer closed 3 years ago
9
Collect tissue samples in the three Moorea species for CN + AFDW analysis

#33 AHuffmyer closed 1 year ago
1
Grind turbinaria samples and prep for shipment to UCSB

#32 AHuffmyer closed 2 years ago
5
Write scripts for nls quadratic fit for PI curves

#31 AHuffmyer closed 3 years ago
16
Create output of group summary of master data frame for modeling team

#30 AHuffmyer closed 3 years ago
1
Draft of methods before March 17th 2021 E5 meeting

#29 AHuffmyer closed 3 years ago
0
QC standard curves for antioxidant data and confirm standard curve equations.

#28 AHuffmyer closed 11 months ago
0
Add column in timeseries master dataframe for nutrient level for each site.

#27 AHuffmyer closed 3 years ago
0
Explore use of Generalized Additive Models (GAM) for responses.

#26 AHuffmyer closed 2 years ago
0
Create a correlation matrix for all responses to examine collinearity

#25 AHuffmyer closed 3 years ago
0
Normalize each response to all normalizers: biomass, protein, surface area

#24 AHuffmyer closed 3 years ago
1
Look into the literature for S:H biomass ratios to compare to our values

#23 AHuffmyer closed 3 years ago
1
Analyze batch effects for all physiological responses

#22 AHuffmyer closed 11 months ago
0
QC and code for timeseries of environmental data

#21 AHuffmyer closed 2 years ago
3