Won Cheol Yim comments

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                                            Won Cheol Yim

python -m jcvi.compara.catalog ortholog grape peach --no_strip_names ERROR Set text.usetex=False. Font styles may be inconsistent.

https://github.com/tanghaibao/jcvi/issues/440

Assembled genome size under estimated

I will restart from your recommendation and I will update results. Thanks.

Assembled genome size under estimated

Here is follow-up result. I removed -a option. Change -e.70 to -e.75 change length_cutoff = -1 -> 3000 Looks not enough. Any other recommendation? *preads_stat* ``` cat 0-rawreads/report/pre_assembly_stats.json { "genome_length":...

Assembled genome size under estimated

Greg, I used same input but I don't know why did it happen. I just checked input.fofn but there's no differences. Anyway I will reduce to overlapping parameter. Thank you...

关于MuSiteDeep使用的问题

Same here

PDF create

It's about 5.0Gb each. Not processed. Category A has only 51 pair and I think our MP is really poor quality. Because of this, there are no tandem and pe...

PDF create

Thanks. I will look forward it.

Paired end and Tandem orientation. / Reads map to different ID

But paired end and tandem orientation reads in each category are in output reads file.

Paired end and Tandem orientation. / Reads map to different ID

Oh alright. Nextclip just run with adaptor trim and analysis and then it maps to reference genome to check the quality.

python -m jcvi.compara.catalog ortholog grape peach --no_strip_names ERROR Set text.usetex=False. Font styles may be inconsistent.

Use conda `conda create -y -n jcvi-c conda-forge -c bioconda numpy last=1260 jcvi=1.1.19 emboss bedtools more-itertools texlive-core=20210325`