Tutorial:
Tools For Metagenomic Data Analysis
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written 6.0 years ago by
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Istvan Albert
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updated 2.7 years ago by
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written 13.1 years ago by
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updated 4.6 years ago by
chernouhov sergey
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written 13.5 years ago by
User 59
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Tutorial:
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updated 21 days ago by
Ram
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written 13.7 years ago by
Pierre Lindenbaum
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updated 9 months ago by
Ram
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written 11.9 years ago by
Brett Thomas
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updated 19 months ago by
Ram
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written 12.9 years ago by
Jeremy Leipzig
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updated 11 months ago by
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written 10.0 years ago by
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updated 5 months ago by
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written 4.0 years ago by
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written 6.0 years ago by
Mike
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Tutorial:
Survival analysis with gene expression
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1769mkc
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written 5.1 years ago by
Kevin Blighe
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updated 12.3 years ago by
Guangchuang Yu
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written 12.3 years ago by
Eric Normandeau
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written 4.7 years ago by
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Tool:
Lossless ALAPY Fastq Compressor (now for MacOS X with 10-20% improved speed and compression ratio)
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written 6.7 years ago by
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written 13.7 years ago by
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written 11.0 years ago by
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GenoMax
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Yes that should be true. I will let https://www.biostars.org/u/14684/ confirm.
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Thanks for the answe and the linkI used bioinfokit tpm formula to calculate tpm from bulk which is the same formula given in your link:
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Thanks Brian for the suggestion. However, I did the whole process, from bulk counts generation, to data transformation and scrna deconvolut…
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My experience with regular 10x bam files is that duplicates are not removed, but they are flagged as duplicates. So take a look at the …
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Thanks a lot for your answer, I’m confused between RSEM expected count and RSEM normalized count. I’m working on this dataset from UCSC ht…
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In principle, the TPM formula can be reverted, see the timeless post
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You're right, I wasn't explaining the problem clearly. Thanks for the directions!
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All good points, especially about multiple copies of single-copy genes. I am doing error-correction in my assemblies, but was making an edu…
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Yes, normalized RSEM counts from TCGA can be used as input for Limma Voom. Please check this post https://support.bioconductor.org/p/63981/…
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Sorry for the delay in expressing my thanks.
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In most cases error-correction should take care of error-spawned fake minor alleles, though...
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Can you post the commands you used?
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