User: jrh154

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jrh1540
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Posts by jrh154

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Comment: C: Help with Trimmomatic 0.36 Error
... EDIT2: Seems I'm currently in need a coffee; re-looked at the results of the grep search... I don't see any entries that break the four line format...any other ideas? ...
written 9 months ago by jrh1540
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Help with Trimmomatic 0.36 Error
... Hi all, I am hoping to get some help solving a vexing issue I have been having running Trimmomatic for SE reads. Here is the command input I am using to call the program: java -jar /usr/share/java/trimmomatic-0.36.jar SE -threads 1 -phred33 ../data/ICCRIL07_0240.fq.gz ../results/trimmed_seqs ...
trimmomatic adapter sequencing written 9 months ago by jrh1540
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Comment: C: Samtools mpileup - Individual Pile-ups vs Group Pile-ups
... Cool, I will definitely look into using BBMap. If we wanted to compare the results from CallVariants with previous results obtained using Samtools, will there be any significant differences/would these still be valid comparisons? ...
written 11 months ago by jrh1540
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Samtools mpileup - Individual Pile-ups vs Group Pile-ups
... Hi All, First time posting here (or really forums in general), so apologies if I am breaking any etiquette. My question regards using the mpileup feature in Samtools. I am curious if it matters whether or not it matters if I run mpileup individually for each bam file versus running mpileup as one ...
samtools snp mpileup sequencing written 12 months ago by jrh1540

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