Trimviz trimming summary: Fastq-fastq comparison mode, with alignment
Input files:
-u (input R1 fastq file):
../tv_data/pre_trimmed_R1.fastq.gz
-t (trimmed R1 fastq file):
../tv_data/post_trimmed_R1.fastq.gz
-b (bam file):
../tv_data/alignment.bam
-g (genome fasta file):
../tv_data/genome.fa
Summary of trimming frequency
Trim class
Number of reads
%
uncut
40551
81.1
5pcut
0
0.0
3pcut
8586
17.2
removed
863
1.7
generated_warning
0
0.0
indel
1211
2.4
ambiguous_cut
0
0.0
Tot unique
50000
3p trim position profile:
Heatmap, 3'-trimmed reads clustered by untrimmed read sequence
Heatmap, 3'-trimmed reads clustered by quality patterns
Heatmaps, 3'-trimmed reads clustered by local reference sequence
Individual read trimming, grouped by trimming class