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Answer: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
Comment: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
Answer: help in changing Y scale in R
Answer: when I use htslib to write a bam. Error of "truncated file" shows by samtools
Survival analysis of TCGA patients integrating gene expression (RNASeq) data
Comment: I cannot download VG in any way
Why does WGCNA use weighted correlation instead of Pearson correlation?
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Recent Replies
Answer: DEG analysis with limma and contrast matrix using multiple Parkinson's cohorts i
by
Gordon Smyth
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It is very common for studies like this to show no significant DE. Human studies like this where comparisons are made between diseases and …
Comment: Invalid CIGAR after using bam clipOverlap
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MboiTui
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update. The error persists. With ValidateSamFile I get no error until i use MarkDuplicates. Then for the MarkDuplicates output I get: …
Comment: when I use htslib to write a bam. Error of "truncated file" shows by samtools
by
Aaron
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Thanks very much.
Answer: help in changing Y scale in R
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LauferVA
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Hello @ab33b6d7 , Below is approximately the code block you provided, with a few additional lines added. Each of the new lines has > …
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I want to apply for this PhD position. I did MSc Zoology and MPhil biosciences.
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Hi pubsurfted, I ran into the same issue using a reference transcriptome with HISAT2 from the Ensembl database. For others with similar e…
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isec is pretty awful for these set operations - especially since individual samples present alleles, not lines in a VCF file. If you can co…
Comment: help in changing Y scale in R
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Medhat
9.7k
Maybe try to calculate min and max combined_min <- min(a_filtered$value, a_filtered_tv$value, na.rm = TRUE) combined_max <- max(a_…
Answer: help in changing Y scale in R
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ATpoint
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Use `+ylim(c(lower, upper))`. Either set manually, or query both `a_filtered` and `a_filtered_tv` for the minimum and maximum values that g…
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I am not familiar with deseq data, but if it makes sense, remove rows/columns that have only NAs. #remove rows x<- mat.z[ rowSums(…
Answer: when I use htslib to write a bam. Error of "truncated file" shows by samtools
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There are several problems with this code: 1. You have not set `b->l_data`, which here should be set to the same value as `b->m_data`. T…
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How come? If I have a pro-tumorigenic product, for example, wouldn't this comparison be valid?
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Thanks @Zhenyu Zhang for your response. I have just looked at the files you mentioned. Do you have any recommended package or code snippet …
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As far I understand non coding region equal to the intergenic region? please can you write an example for how to calculate one region ? I…
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