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kfuku52 / amalgkit

RNA-seq data amalgamation for a large-scale evolutionary transcriptomics
BSD 3-Clause "New" or "Revised" License
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Duplication rate and insert size peak from the fastp json report #150

Open kfuku52 opened 8 months ago

kfuku52 commented 8 months ago 
fastp stderr:
Read1 before filtering:
total reads: 137247004
total bases: 12352230360
Q20 bases: 12352230360(100%)
Q30 bases: 12352230360(100%)

Read2 before filtering:
total reads: 137247004
total bases: 12352230360
Q20 bases: 12352230360(100%)
Q30 bases: 12352230360(100%)

Read1 after filtering:
total reads: 137221177
total bases: 12308678232
Q20 bases: 12308678232(100%)
Q30 bases: 12308678232(100%)

Read2 after filtering:
total reads: 137221177
total bases: 12308678232
Q20 bases: 12308678232(100%)
Q30 bases: 12308678232(100%)

Filtering result:
reads passed filter: 274442354
reads failed due to low quality: 0
reads failed due to too many N: 51654
reads failed due to too short: 0
reads with adapter trimmed: 4402276
bases trimmed due to adapters: 82458178

Duplication rate: 22.9565%

Insert size peak (evaluated by paired-end reads): 138

JSON report: /dev/null
HTML report: /dev/null