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Recent Votes
- C: What are the best scATAC-seq computational pipelines / tools / literature curren
- C: NGS Data storage solutions for small organisations or big labs
- A: Extract column which contain <20 exons in a transcript
- A: How to change Rstudio language
- A: How do I subset a GRanges on chromosome, region and strand?
- Functional annotation(GO,KEGG): Blast2GO+KAAS or EggNOG
- A: plotting a dotplot with topGO output
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Recent Replies
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C: Chip-seq IgG as control or Input DNA or usage of both by
ATpoint ♦ 46k
Others may have different opinions but I do not really like this paper. It lacks any experimental...
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C: Which normalization method/pipeline is best to generate normalized counts to mak by
ATpoint ♦ 46k
Do the different datasets contain roughly the same celltypes or is this rather a mishmash of expe...
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A: Loading a dataset via acession number by
ATpoint ♦ 46k
This is RNA-seq, not microarrays which GEOquery assumes, so it is expected that it produces no ou...
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C: NGS Data storage solutions for small organisations or big labs by
A. Domingues • 2.4k
That was pretty much my low-tech solution, but I was just wondering of there was better way of go...
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C: Extract column which contain <20 exons in a transcript by
seidel ♦ 7.4k
Translation for us mortals :) Create a subprocess to count transcripts IDs (column 4), use awk to...
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A: Search all SRA data for sequence? Raw reads only by
Mensur Dlakic • 9.0k
Have you tried BLASTn from the NCBI web site? Simply select SRA as a target database from the dro...
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A: How to change Rstudio language by
ATpoint ♦ 46k
https://stackoverflow.com/questions/13575180/how-to-change-language-settings-in-r
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C: How to average normalized counts of biological replicates by
ATpoint ♦ 46k
Hello marina.rot! It appears that your post has been cross-posted to another site: https://suppo...
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C: Recommendations for genome-wide genotyping platform, array and data analysis sof by
GenoMax ♦ 96k
For example Illumina Omni arrays are between $200-$500 ([example LINK][1]). Large sequencing comp...
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C: VEP is very slow. Fork doesnt seem to work by
Collin • 870
Also, as it looks like you are trying to annotate somatic mutations (likely in cancer), OpenCRAVA...
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C: VEP is very slow. Fork doesnt seem to work by
Collin • 870
I'm not a VEP user, but if you can't figure it out then you can always use another variant annota...
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A: Which normalization method/pipeline is best to generate normalized counts to mak by
Mensur Dlakic • 9.0k
It seems like you want to normalize the data so that the number of transcripts in all datasets is...
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