2024
April 2024
- Alignment and assembly of RNAseq reads for Montipora capitata larval thermal tolerance 2023 project • April 20, 2024
- UT Sydney processing for lipidomics and metabolomics for Hawaii 2023 project • April 19, 2024
- April 2024 Goals • April 19, 2024
- QC of top off RNAseq files for Montipora capitata larval thermal tolerance 2023 project • April 13, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project top off sequencing second upload • April 12, 2024
- Hatchery field day at Point Whitney April 3 2024 • April 3, 2024
- KAPA bead clean-up protocol for removal of primer dimers from PCR product • April 1, 2024
- ITS2 amplicon sequencing preparation protocol • April 1, 2024
March 2024
- Pocillopora and Porites Species ID Sanger Sequencing and RFLP protocol • March 30, 2024
- ITS2 amplicon PCR and preparation for sequencing 20240326 • March 30, 2024
- Protocols used during URI 2024 visit • March 27, 2024
- March 2024 Goals • March 27, 2024
- Sequence depth subsampling test with Mcap2020 ITS2 dataset • March 26, 2024
- E5 POC and POR Species ID PCR and RFLPs • March 26, 2024
- Correcting subsampling error in Mcap2020 ITS2 code and revise results • March 24, 2024
- Hatchery day at Point Whitney to continue seed stress exposures • March 19, 2024
- Process to apply for US CITES export permit • March 15, 2024
- Washington Sea Grant Shellfish Growers Meeting Notes • March 11, 2024
- Analysis of Variance Simultaneous Component Analyses ASCA for CEABIGR project • March 7, 2024
- Point Whitney field day to start individual growth experiment and plan for new seed exposure work • March 5, 2024
February 2024
- Lifestage Carryover Project Sampling • February 28, 2024
- WGCNA Attempt 2 for ceabigr project exon expression data • February 27, 2024
- Prepping equipment and oysters for Lifestage Carryover project sampling day • February 26, 2024
- February 2024 Goals • February 26, 2024
- QC of RNAseq files for Montipora capitata larval thermal tolerance 2023 project • February 23, 2024
- Raw sequence downloads and NCBI SRA uploads for M. capitata larval thermal tolerance project • February 21, 2024
- Oyster lifestage carryover project growth preliminary analysis • February 14, 2024
- Hatchery Day at Point Whitney to Check Lifestage Carryover Project • February 14, 2024
- WGCNA Attempt 1 for ceabigr project exon expression data • February 8, 2024
- Oyster USDA WSG Project Planning 5 Feb 2024 • February 5, 2024
- Revising E5 timeseries results - restructuring figures, filtering, and haplotypes • February 2, 2024
- Planning WSG USDA sample sizes and equipment for spring oyster rearing • February 2, 2024
January 2024
- WSG USDA Hatchery Day - Assessing lifestage carry over project • January 31, 2024
- January 2024 Goals • January 8, 2024
2023
</ul>October 2023
- Moorea 2023 Symbiotic Nutritional Exchange Project Daily Entries • October 27, 2023
- December 2023 Goals • October 5, 2023
- October 2023 Goals • October 5, 2023
September 2023
- Ceabigr correlation matrices attempt • September 29, 2023
- September 2023 Goals • September 5, 2023
August 2023
- Larval rearing at Point Whitney • August 9, 2023
- August 2023 Goals • August 1, 2023
July 2023
- Trial oyster strip spawning at Point Whitney • July 31, 2023
- F1F2 project data analysis Hawaii 2023 • July 31, 2023
- July 2023 Goals • July 10, 2023
June 2023
- Hawaii 2023 Coral Spawning and Field Expedition Daily Entry • June 15, 2023
- Sanger Sequencing Training • June 2, 2023
- June 2023 Goals • June 2, 2023
May 2023
- E5 Deep Dive RNAseq WGCNA Analysis • May 5, 2023
- May 2023 Goals • May 1, 2023
April 2023
- Mcap 2021 Stable Isotope Metabolomics Analysis • April 24, 2023
- April 2023 Goals • April 1, 2023
March 2023
- Revising E5 Time Series Multivariate Plasticity Analysis • March 16, 2023
- E5 Deep Dive RNAseq Count Matrix Analysis • March 15, 2023
- Mcapitata Larval Temperature Experiment Data Analysis • March 13, 2023
- March 2023 Goals • March 1, 2023
February 2023
- 2023 UW Software Carpentry Workshop in Terminal Git and R • February 27, 2023
- February 2023 Goals • February 25, 2023
- Intro to DVC Workshop • February 16, 2023
- TidyTuesday Exercises • February 10, 2023
January 2023
- January 2023 Goals • January 6, 2023
- Integrative analysis for Montipora capitata developmental time series • January 6, 2023
2022
</ul>December 2022
- Analyzing TagSeq data with new annotation • December 16, 2022
- Revising Figures for Mcapitata Development 2020 Project • December 14, 2022
- Mcapitata Development 16S Analysis - Mothur pipeline visualizations • December 13, 2022
- December 2022 Goals • December 5, 2022
November 2022
- Analyzing Acropora larval metabolism experiment respirometry data • November 29, 2022
- Symbiont gene expression in Mcap2020 developmental time series • November 28, 2022
- Analyzing Environmental Data - Acropora larval metabolism 2022 • November 22, 2022
- SRA Uploads 10 November 2022 • November 10, 2022
- Moorea 2022 Coral Spawning and Field Expedition Daily Entry • November 9, 2022
- November 2022 Goals • November 7, 2022
October 2022
- October 2022 Goals • October 3, 2022
September 2022
- September 2022 Goals • September 2, 2022
- E5 Multivariate Physiological Plasticity Analysis • September 1, 2022
August 2022
- August 2022 Goals • August 1, 2022
July 2022
- Montipora capitata spawning and larval rearing protocol • July 20, 2022
June 2022
- Stable Isotope Metabolomics Larval Protocol • June 15, 2022
- SDR Microplate Respirometry Protocol • June 15, 2022
- June 2022 Goals • June 1, 2022
May 2022
- May 2022 Goals • May 2, 2022
April 2022
- Multi-Omic Integration Analysis Part 1 • April 26, 2022
- Larval Size Photographs Protocol • April 13, 2022
- Symbiont Cell Counts Protocol • April 8, 2022
- Stable Isotope Metabolomics Extraction Protocol • April 8, 2022
- Protein Protocol • April 8, 2022
- Montipora capitata 2021 larval temperature experiment sample processing • April 8, 2022
- Chlorophyll Content Protocol • April 8, 2022
- Carbohydrates Protocol • April 8, 2022
March 2022
- Putnam Lab Oyster 16S Analysis in Mothur • March 3, 2022
- March 2022 Goals • March 1, 2022
February 2022
- Comparing TagSeq between genome assembly V1 and V2 • February 9, 2022
January 2022
- February 2022 Goals • January 31, 2022
- Comparing QIIME2 and Mothur 16S QC and Filtering • January 31, 2022
- Analyzing 16S Mothur Results in R • January 31, 2022
- Metabolomics WGCNA Analysis Part 2 • January 25, 2022
- 16S Pipeline in Mothur • January 12, 2022
- January 2022 Goals • January 3, 2022
2021
</ul>December 2021
- Mcapitata Development 16S Analysis in QIIME2 (Part 3) • December 30, 2021
- Mcapitata Development ITS2 Analysis Part 2 • December 29, 2021
- Mcapitata Development ITS2 Analysis Part 1 • December 29, 2021
- Mcapitata Development 16S Analysis Part 2 • December 28, 2021
- Mcapitata Development 16S Analysis Part 1 • December 27, 2021
- Pocillopora acuta Symbiont Integration Moorea December 2021 • December 22, 2021
- ITS2 and 16s Extractions • December 22, 2021
- December 2021 Goals • December 1, 2021
November 2021
- E5 Environmental Timeseries Analysis Part 3 • November 18, 2021
- E5 Time Series Data QC • November 17, 2021
- E5 Environmental Timeseries Analysis Part 2 • November 16, 2021
- E5 Environmental Timeseries Analysis Part 1 • November 15, 2021
- Metabolomics WGCNA Analysis Part 1 • November 13, 2021
- November 2021 Goals • November 1, 2021
September 2021
- Pocillopora Larval Collection June 2021 • September 2, 2021
- Larval Settlement Mcapitata June 2021 • September 2, 2021
- Isotope Time Series Data Collection June 2021 • September 2, 2021
- Mcapitata Temperature Exposure and Design June 2021 • September 1, 2021
- Mcapitata Survival and Experiment Maintenance June 2021 • September 1, 2021
- Mcapitata Spawning and Fertilization June 2021 • September 1, 2021
- Mcapitata Sampling and Data Collection June 2021 • September 1, 2021
- Mcapitata Equipment Setup 2021 • September 1, 2021
- Mcapitata Culture Maintenance June 2021 • September 1, 2021
- Mcapitata Baseline Sampling June 2021 • September 1, 2021
April 2021
- Mcapitata 2020 Early Life History Sample Processing • April 22, 2021
2020
</ul>November 2020
- Ahyacinthus Early Life History Respirometry • November 20, 2020
July 2020
- Mcapitata Respiration and Photosynthesis Early Life History July 2020 • July 30, 2020
- Mcapitata Larval Rearing and Settlement July 2020 • July 30, 2020
- Mcapitata July 2020 Embryo Larvae Recruit Sampling • July 30, 2020
- Mcapitata Early Life History Respirometry Protocol • July 30, 2020
- Mcapitata July 2020 Sampling Protocol • July 21, 2020
- Mcapitata Spawning and Fertilization July 2020 • July 20, 2020