Mick Watson

Plots are randomly clipped when saving using png() or ggsave()

2

Hi I am using patchwork to combine together a bunch of ggplots and base R plots. It all seems to work fine, except when I try and save the plot...

add comment about different widths to main vignette

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### Description of the issue I'm sorry if this has been mentioned before, but the flows overlap the boundaries of the columns and I am not sure why, even in...

Seqkit sana fails on valid FASTQ

5

e.g. this is valid FASTQ from the SRA: ```sh @SRR2175749.1/1 GCCATACGTATCGATGTAAGCTGGATCCTCGGTTGTTGTTCCGCCAAAACCGCTCTTTGTAAACGGACTGTAAACGGTGGCACTTGCCGGCATATAGATAG +SRR2175749.1/1 BBBFFFFFFFFFFFFFIIFFFFFIFFFFFFBFBFFFFIFFFBFFFF7

Time and memore requirements

3

Hi I've been trying to simulate an average of ~5000 reads from ~10000 transcripts. I set this running at 4pm last night, and it's still running now with only an...

Pileup::Run() : Data not sorted correctly!

1

Hi Sorry to be a pain. I am running Piledriver on an AWS instance (Ubuntu 12.04 LTS) with a bam file that has been sorted using samtools 0.1.18, and I...

Reporting quite ridiculously large numbers!

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Hi Aaron I have a rather aged BAM file which is producing some very stupid numbers e.g. chrom start end ref depth r_depth a_depth num_A num_C num_G num_T num_D num_I...

What is a good e-value cut-off?

2

Hello! It's not clear to me what a good e-value cut-off is to use? Is there guidance? Thanks Mick