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Hi,
StringTie provides a python script (prepDE.py) for raw counts to be used by DESeq2 and edgeR at both transcript and gene level. When TPMs / FPKMs values are extracted using 'stringtie_expression_…
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hi,@chhylp123
I was using [hifiasm_dev_debug](https://github.com/chhylp123/hifiasm/tree/hifiasm_dev_debug) to assemble a polyploidy genome, but somthing wrong happened. I used the "-5" parameter to…
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My group is working on sequencing the genome of a freshwater diatom, one member of a large class of unicellular algae. We have no previous knowledge or indication of its ploidy, though most published …
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Please taxon restrict
abortive mitotic cell cycle GO:0033277
There are only 2 EXP annotation based on:
http://europepmc.org/article/MED/23509158
entitled
"Megakaryocyte-specific deletion of …
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Hi,
I am trying to use the SubPhaser to phase the subgenomes of my species. The parental species are unknown and I built a quite good chromosomal assembly with 99% of BUSCOs
[k13_q100_f2.0.circos…
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**1. What were you trying to do?**
Try to identify variants by vg deconstruct with gfa file produced by PGGB
**2. What did you want to happen?**
I would like to get a vcf file from vg deconst…
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I have had some troubles understanding my smudgeplot of a highly repetitive genome that has undergone LTR expansion recently. I counted 21-mers from 10x linked reads with the barcode information prune…
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Does Smudgeplot recognize haploid or assume polyploidy a priori?
I did some tests with Saccharomyces genomes described in the literature as haploid and I always get the diploid classification from …
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Dear tangerzhang
Thanks for your tools about assembly of polyploid.
Recently I am doing assembly of a autotetraploid genome, and I follow the workflow #15. After running 3D-DNA, I run the scrip…
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While developing the extension for bees, we wanted to change the genotype at a specific locus, but to a particular heterozygous state. For this, we have written our own function, but it would be much …