Planning page

Thank you all for joining the meeting.

How to pul the "_raw.fastq.gz" files from the OSDR

Click here to access and edit the planning document.

We should check out the NMDC workflows?

Metagenome Assembly Workflow (v1.0.1) — NMDC Workflows 0.2a documentation

Link to edit planning spread sheet

- I think this could be automated (or done more elegantly than my copy-paste), at least for the OSDR records. That is what #4 below is doing, right @Richard? Then do it by hand for studies not in ALDS? - If we can automate this, awesome. Otherwise, there are more identified datasets (in the OSDR alone) than us. How should we approach it?

4. Example Google colab notebook for pulling metadata for GLDS-69 … now evolving

https://github.com/dr-richard-barker/Microbiome_seedlings_in_space/blob/main/Google_colab/OSDR_API_meta-transcriptome_microbiome_analysis.ipynb

The Google Doc of our meeting notes and the Excel sheet are in this Google Drive folder:

Please feel free to drop anything else there.

Explore "Bacdrive" resources for new insights:

BacDive | The Bacterial Diversity Metadatabase

If our efforts need a different approach for documents than an open-shared Google, let me know and I will work to set it up.