Results: Group Overview
Forsyth Oral Microbiome Core | Zymo Research Corporation
1 Sample Information
The Sample Information Table shows information for up to 10 samples. For projects with more than 10 samples, the Complete Sample Information Table can be accessed by clicking on the first link below the table. The Read Processing Summary Table can be accessed by clicking on the second link below the table.
1. Sample_ID: unique identification code that was assigned to each sample.
2. Customer_Label: sample name provided for the project and used in analyses.
3. Subgroup Columns: group comparison information, if group comparison information was provided for the project, is displayed in the remaining columns of the table.
4. FastQCResults: read quality results for each sample, click on the links to view the results.
Read Processing Summary Table:
1. Pairing_Type: whether the sample is pair-ended or single-ended.
1. Raw_Reads: number of raw sequencing reads generated for each sample.
2. Both_Surviving_Reads: number of reads that have both forward and reverse reads passing trimming QC.
3. Forward_Only_Reads: number of reads that only have forward reads passing trimming QC.
4. Reverse_Only_Reads: number of reads that only have reverse reads passing trimming QC.
5. Dropped_Reads: number of reads that failed trimming QC.
6. rRNA_Reads: number of reads that were classified as ribosomal RNAs.
7. Host_Reads: number of reads that were mapped to common host genomes.
8. Low_Complexity_Reads: number of reads that have low sequence complexity.
9. Final_Reads: number of final trimmed and filtered reads (raw_reads - dropped_reads - rRNA_reads - host_reads - low_complexity_reads).
| Sample_ID | Customer_Label | FastQCResults |
|---|---|---|
| zr31987_1T | A.1 | Read1;Read2 |
| zr31987_2T | A.2 | Read1;Read2 |
| zr31987_3T | A.3 | Read1;Read2 |
| zr31987_4T | A.4 | Read1;Read2 |
| zr31987_5T | A.5 | Read1;Read2 |
| zr31987_6T | Y.1 | Read1;Read2 |
| zr31987_7T | Y.2 | Read1;Read2 |
| zr31987_8T | Y.3 | Read1;Read2 |
| zr31987_9T | Y.4 | Read1;Read2 |
| zr31987_10T | Y.5 | Read1;Read2 |
2 Taxonomy Analysis Results
Click on the links below to view the results for each taxonomy analysis:
Read Distribution Summary
The following composition barplot shows the types of reads assigned to each sample in this project.
3 Genome Match Info Summary
After candidate genomes are identified by Sourmash within each sample, additional read-mapping-based analyses are performed to further validate the presence of those candidate genomes. Click on the link below to view the genome match info for each sample:
1. genome_id: Unique ID of the reference genome.
2. lineage: Full lineage of the reference genome.
3. final_mapped_read_count: The total number of final filtered reads uniquely mapped to the reference genome.
4. seq_identity(%): The similarity between the reference genome sequence and the read sequences mapped to it.
5. genome_coverage(%): The percentage of the reference genome sequence covered by mapped reads.
6. genome_avg_depth: The average number of bases mapped to each base of the reference genome sequence.
7. read_depth(>1x): The average number of bases mapped to each base of the reference genome sequence, excluding the bases with no mapping.