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Pierre Lindenbaum
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Recent Replies
Answer: seqtk subseq in.fastq list.txt > out.fastq not extracting full sequence from
by
KHURRAM SHAHZAD
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0
Thank you it works
Answer: Add stats to the plot
by
Ghada
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I think this is what caused the error. we do not have group 1 and 2 in the statistical test results????
![enter image description here][…
Answer: scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
by
Bibi
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@atpoint thanks you for your timely response. Can someone else shed light if we can compare the trend of DEGs using the scRNA and Bulk RNA…
Comment: Add stats to the plot
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GenoMax
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Please use `101010` to format `code` so it is represented in monospace font. I have done this for you now.
Answer: is there a tool to recover corrupted fastq files
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Tommaso
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You may also want to give a try to **FastqWiper** (https://github.com/mazzalab/fastqwiper)
Comment: Add stats to the plot
by
Ghada
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Thanks. That helpful.
I am getting this error
data4_test <- data4.ts%>% ungroup() %>% t.test(data =.,value ~ Condition)%>%
+ …
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 comment here. You are asking why results between two experiments are different. I do not know without seeing the data.
Comment: scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
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Bibi
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Thank you so much for this insight. I just want to clarify another point here. I have used scRNA seq data from mice mammary epithelial cell…
Comment: Is it Possible to "Merge" data from Replicates within a VCF SNP File
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Pierre Lindenbaum
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> 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
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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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ATpoint
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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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LauferVA
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how has this code progressed? is it publically available? would you want to work together?
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Ezequiel
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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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