A modular tool to aggregate results from bioinformatics analyses across many samples into a single report.
Report generated on 2020-11-06, 04:37 based on data in:
/gscratch/scrubbed/samwhite/outputs/20201029_ssal_RNAseq_fastp_trimming/gscratch/scrubbed/samwhite/outputs/20201103_ssal_RNAseq_hisat2_alignment
General Statistics
Showing 8/8 rows and 5/7 columns.| Sample Name | % Aligned | % Duplication | GC content | % PF | % Adapter |
|---|---|---|---|---|---|
| Pool26_16_P_31_1 | 9.4% | 48.3% | 99.2% | 26.8% | |
| Pool26_16_hisat2.err | 92.5% | ||||
| Pool26_8_P_31_1 | 9.0% | 49.2% | 99.3% | 23.8% | |
| Pool26_8_hisat2.err | 92.9% | ||||
| Pool32_16_P_31_1 | 8.3% | 48.4% | 99.2% | 26.0% | |
| Pool32_16_hisat2.err | 92.3% | ||||
| Pool32_8_P_31_1 | 10.3% | 48.0% | 99.2% | 21.6% | |
| Pool32_8_hisat2.err | 93.4% |
HISAT2
HISAT2 is a fast and sensitive alignment program for mapping NGS reads (both DNA and RNA) against a reference genome or population of reference genomes.
Please note that single mate alignment counts are halved to tally with pair counts properly.
fastp
fastp An ultra-fast all-in-one FASTQ preprocessor (QC, adapters, trimming, filtering, splitting...)
Filtered Reads
Filtering statistics of sampled reads.
Duplication Rates
Duplication rates of sampled reads.
Insert Sizes
Insert size estimation of sampled reads.
Sequence Quality
Average sequencing quality over each base of all reads.
GC Content
Average GC content over each base of all reads.
N content
Average N content over each base of all reads.
