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Answer: Answer: Is it advisable to input a count matrix that consists of reads aligned using dif
2.6 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Three conditions and two time points
2.6 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Question on the fold change estimate
2.6 years ago swbarnes2 ★ 1.4k
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Answer: Answer: DESeq2: All samples have 0 counts for all genes. check the counting script
2.6 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Interpretation of DESeq2 results with 3 factorial design with interaction terms.
2.6 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Log fold change interpretation of time series with Wald test
2.7 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Sequencing depth before and aftr normalisation with DESEQ2 doesn't look as expec
2.7 years ago swbarnes2 ★ 1.4k
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Answer: Answer: How does edgeR calculate fold change?
2.7 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Error in curl; timeout when using biomaRt
2.7 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Differential Expression analysis of specific list of genes
2.8 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Deseq paired samples
2.8 years ago swbarnes2 ★ 1.4k
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928
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Answer: Answer: tximport fails when RSEM output options produce files with additional columns?
2.9 years ago swbarnes2 ★ 1.4k
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Answer: Answer: DESeq2 question: why I got discrepancy results for DEGs when using different way
2.9 years ago swbarnes2 ★ 1.4k
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2.2k
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Answer: Answer: undefined columns selected
2.9 years ago swbarnes2 ★ 1.4k
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647
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Answer: Answer: Doing multiple comparisons in a DESeq2 object with multiple conditions
2.9 years ago swbarnes2 ★ 1.4k
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Answer: Answer: DESeq2 for longitudinal data
2.9 years ago swbarnes2 ★ 1.4k
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Answer: Answer: No counts, just fold change data
2.9 years ago swbarnes2 ★ 1.4k
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Answer: Answer: DESeq2: Paired samples (before and after treatment) with different responses
3.0 years ago swbarnes2 ★ 1.4k
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576
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Answer: Answer: How to remove batch effect from multiple rna-seq dataset before running deseq2
3.0 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Creating a DESeqDataSet from a RangedSummarizedExperiment - where is the design
3.0 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Contrasting LogFCs in DESeq2
3.0 years ago swbarnes2 ★ 1.4k
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Answer: Answer: biomaRt - rice genes database not working
3.0 years ago swbarnes2 ★ 1.4k
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2.1k
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Answer: Answer: DESeq2 numbers of DEGs not consistent with PCA plot
3.0 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Grouping DESEQ2 with additional variable
3.0 years ago swbarnes2 ★ 1.4k
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Answer: Answer: DeSeq2 with 2 conditions and 3 time points
3.0 years ago swbarnes2 ★ 1.4k
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614
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Answer: Answer: DESEQ2 colData object
3.0 years ago swbarnes2 ★ 1.4k
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Answer: Answer: How to plot gene counts using plotCounts() with just an individual contrast?
3.0 years ago swbarnes2 ★ 1.4k
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827
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Answer: Answer: DESeq2 desing formula for cell fraction and siRNA scramble
3.0 years ago swbarnes2 ★ 1.4k
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698
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Answer: Answer: broken link to DESeq
3.1 years ago swbarnes2 ★ 1.4k
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Answer: Answer: is the P value reliable if the counts are Low counts across the sample ?
3.1 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Technical-biological replicates in edgeR
3.2 years ago swbarnes2 ★ 1.4k
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Answer: Answer: DESeq2 - multifactorial design
3.2 years ago swbarnes2 ★ 1.4k
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Answer: Answer: DESeq2 calling DEGs despite detection in few replicates
3.2 years ago swbarnes2 ★ 1.4k
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2.2k
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Answer: Answer: error when reading fastq file
3.2 years ago swbarnes2 ★ 1.4k
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1.4k
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Answer: Answer: Batch correction and DESeq2
3.2 years ago swbarnes2 ★ 1.4k
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Answer: Answer: How to setup sample design in DESeq2
3.2 years ago swbarnes2 ★ 1.4k
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1.2k
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Answer: Answer: DESeq2 in R
3.3 years ago swbarnes2 ★ 1.4k
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Answer: Answer: DEseq2: setting up the correct contrast.
3.3 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Unable to run "library(DESeq2)" successfully
3.3 years ago swbarnes2 ★ 1.4k
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948
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Answer: Answer: DESeq2 anormally high estimation of Log2FoldChange
3.3 years ago swbarnes2 ★ 1.4k
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Answer: Answer: Design formula for pairwise comparison of experimental setup with multiple facto
3.4 years ago swbarnes2 ★ 1.4k
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999
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Answer: Answer: Compining DESeq2 output with biomart query to display DE genes rather than DE en
3.5 years ago swbarnes2 ★ 1.4k
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766
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Answer: Answer: DESeq2 interaction study
3.5 years ago swbarnes2 ★ 1.4k
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Answer: Answer: What defines a batch in DESeq2 analysis
3.5 years ago swbarnes2 ★ 1.4k
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Answer: Answer: How to prepare a file to DESeq2 analysis?
3.5 years ago swbarnes2 ★ 1.4k
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3.5k
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Answer: Answer: Extracting Sequences from Fasta Files with Rsamtools
3.5 years ago swbarnes2 ★ 1.4k
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755
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Answer: Answer: Using DESeq with 2 assays having 2 conditions
3.6 years ago swbarnes2 ★ 1.4k
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7.0k
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Answer: Answer: DESeq2 - Error: full model matrix is less than full rank
3.6 years ago swbarnes2 ★ 1.4k
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Answer: A: how to deal with differential analysis between 3 groups in DESeq2?
3.6 years ago swbarnes2 ★ 1.4k
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4.5k
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Answer: A: How to add pseudocount to DESeq2 dds object
3.7 years ago swbarnes2 ★ 1.4k
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