There is a fastq_annotated.csv file in s3://czb-tabula-muris-senis/Plate_seq/3_month/, which lists the samples and corresponding s3 URIs.
However, there is no such file for other age groups - 18 and 21 and 24 months (Plate_seq/18_month/, Plate_seq/21_month, Plate_seq/24_month, respectively).
So I tried to work around the problem by searching for the cell ids from tabula-muris-senis-facs-official-raw-obj__cell-metadata.csv in /metadata and compare the cell id against URI of all plate-seq retrieved through AWS cli command aws s3 ls s3://czb-tabula-muris-senis/Plate_seq/${month}_month/.
Here, I confronted another problem that some cells have two different fastqs with the same cell ID, where only the super directory names differ.
This is the case for the following example:
There is a
fastq_annotated.csvfile ins3://czb-tabula-muris-senis/Plate_seq/3_month/, which lists the samples and corresponding s3 URIs. However, there is no such file for other age groups - 18 and 21 and 24 months (Plate_seq/18_month/,Plate_seq/21_month,Plate_seq/24_month, respectively). So I tried to work around the problem by searching for the cell ids fromtabula-muris-senis-facs-official-raw-obj__cell-metadata.csvin/metadataand compare the cell id against URI of all plate-seq retrieved through AWS cli commandaws s3 ls s3://czb-tabula-muris-senis/Plate_seq/${month}_month/. Here, I confronted another problem that some cells have two different fastqs with the same cell ID, where only the super directory names differ. This is the case for the following example:Could you please provide the FASTQ annotation data?