Sequencing Files

This file name refers to the forward reads (R1) sequenced from a biological sample with the file number 8 that were collected using whole metagenomic sequencing in dataset CMP002.

Please use this file naming template for raw sequences tool as a guide to create file names.

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CCoMP_Sequence_File_Names.xlsx

Field Definitions

Each number in the example above corresponds to a field in the file name. Fields are separated by ‘_’ to enhance computer readability. Shortened column names used in the template above are provided in parentheses next to the appropriate field definition.

1. Dataset Number (Dataset_No):

   • All C-CoMP datasets will be assigned an internal dataset number. Please request this number on the #dataset_number_requests slack channel following the instructions provided above.

   • Metadata about the dataset (including Dataset number, method type, and data storage location) will be recorded in the C-CoMP Data Catalog.

2. Approach (Approach):

   • The kind of method that was used for this specific project X sample (see examples and abbreviations below)

3. Sample type (Sample_Type):

   • Use this field to distinguish sample types. Sample type should fall into one of these categories: quality control (QC) or biological sample (SA). QC includes samples run as DNA extraction or sequencing controls to check for contamination during sample preparation.

4. File number (File_No)

5. Forward or Reverse Reads (Forward_Reverse):

   • Either the forward reads (R1) or reverse reads (R2) if applicable to the file type. Use ‘noR’ if this is not applicable.

6. Sequencing number (Seq_no):

   1. Used if there is more sequencing data for the same sample and data type. This field is only changed if the sample is a technical replicate. If the sample is a biological replicate or from a separate extraction process, the sample is assigned a different sample_ID. Default number is 001.

7. File-type extension

Approach Abbreviations:

• WMX - Whole Metagenomic Sequencing (environmental metagenomics)

• WQX - Whole Genome Sequencing

• AMP - Amplicon Sequencing (e. g. 16S rRNA)

• TXX - Transcriptomics

• MTX - Environmental Metatranscriptomics

Sample Type Abbreviations:

• QC - Quality Control

• SA - Biological Sample