Showing : biologicalreplicates • reset
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Combining biological replicates from raw counts for use in differential gene expression/normalization (DESeq2 and edgeR)
differential gene expression biologicalreplicates raw_counts
updated 6.2 years ago by 67k • written 6.2 years ago by • 0
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7
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2.8k
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Handling both technical and biological replicates in Ballgown
ballgown biologicalreplicates technical replicates stringtie
updated 7.0 years ago by ▴ 210 • written 7.7 years ago by • 0
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5
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3.9k
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DESeq2 - how to build design for multiple paired samples before/after with 2 conditions? (non-crossover)
deseq2 multifactorial design paired samples biologicalreplicates
7.8 years ago jahorst • 0
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1
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954
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Uneven number of treatment/control libraries
biologicalreplicates
8.1 years ago hac141 • 0
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6
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1.8k
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Effect of biological variation on tests
biologicalreplicates statistical test
updated 8.2 years ago by 51k • written 17.1 years ago by ▴ 320
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2
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1.3k
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seeking a paper or journal review about repeated multiple testing for Biological ChIP-seq replicates?
bioinformatics paper multiple treatments biologicalreplicates
updated 8.3 years ago by 51k • written 8.3 years ago by ▴ 80
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10
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DESEQ2 with 3 biological replicates for control and 1 biological replicate for treatment
DESEQ deseq2 deseq replicates biologicalreplicates
9.0 years ago wd ▴ 30
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1.3k
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Possible implementation of two class paired Rank Products in r with package RankProd
RankProd pairedtest bioconductor biologicalreplicates
9.6 years ago svlachavas ▴ 830
8 results • Page 1 of 1
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Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta by Michael Love 42k
That is the rows that did converge.
Answer: Is my time course analysis with DESeq2 valid? by Michael Love 42k
For choosing the correct statistical design, I recommend working with a local statistician or someone familiar with linear models in R. I h…
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore by Mike Smith ★ 6.6k
Unfortunately I received this update from the Ensembl Helpdesk on 2024-11-14: > Unfortunately, the fix is taking longer than expected and …
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta by daniela.gutierrezandrade • 0
Hello, I am running into a similar issue. After setting the design, at the beginning of the analysis I filter rows with low counts. d…
Comment: Limma- Print-tip loess normalisation-printer layout information does not match M by dseauer • 0
Thank you so much for all of your help! I really appreciate it!
Votes
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: [How to construct a model.matrix ]
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
biomaRt rnorvegicus_gene_ensembl not available anymore
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