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Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
Pierre Lindenbaum
161k
> Cannot read non-existent file: file:///local/home/User/VCF_Filtering/biostar.code
your file doesn't exist, is at the wrong place etc.
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
by
ajbarrett98
•
0
Hi Pierre,
I am attempting to run this code and am running into this error:
(jvar) $ jvarkit vcffilterjdk -f biostar.code Dart_VCF2_Or…
Comment: scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
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ATpoint
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I cannot give a precise answer, as ML is not my field, but generally, why don't you apply the method to pseudobulks of the exact single-cel…
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https://stackoverflow.com/questions/10365167/geom-bar-bars-not-displaying-when-specifying-ylim
Comment: What marks a De-Novo Genome assembly as FAILED?
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Yes. We are sequencing 45 different samples with illumina.
12 of these are also going to be sequenced with Nanopore (for hybrid assembly). …
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how has this code progressed? is it publically available? would you want to work together?
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I completely agree with most points. The PCA shows that the biggest driver of difference is the patients themselves, with PRE and POST time…
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Hi, you can add statistical annotations using `ggpubr` function `stat_pvalue_manual `. You need to make sure you calculate the p-values fir…
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Use everything before the whitespace in list.txt, for example `A00869:294:HCW57DSXY:2:1101:3929:1000` and not `A00869:294:HCW57DSXY:2:1101:…
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I actually had this same issue with CellRanger v7- turns out that since you have 2 species in your mapping reference, CellRanger is forcing…
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Assume you have genotype data in Plink format. (G.bed, G.bim, G.fam)
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did you ever figure it out? i'm having the same issue.
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Hi Larissa! I am the lead developer of R2DT and I've just noticed this question. Could you please email help@r2dt.bio with your input seque…
Comment: constructing pangenome through psvcp
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Fixed the issue by updating nucmer version.
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Can you create a small test database (`makeblastdb`) from your query file and try to run the search against the same file and see if that w…
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