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RNA Seq comparisons
comparisons R sleuth rna-seq written 5 weeks ago by lmmjrf • 0
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Sleuth Error in forderv/ Failed to allocate TMP or UGRP or they weren't cache line aligned: nth=12
R sleuth kallisto rna-seq written 12 weeks ago by mbartl13 • 0 • updated 12 weeks ago by ATpoint ♦ 44k
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159
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1
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Problem with "sleuth_prep" - 'kal_dirs' (sample_to_covariates) must be a data.frame
R sleuth rna-seq written 4 months ago by dr.fatemeh.askari • 20 • updated 4 months ago by zx8754 ♦ 9.9k
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158
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Sleuth Table - identical q-values
bioinformatics sleuth kallisto rna-seq written 4 months ago by arussell3483 • 20
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1
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343
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Salmon with Sleuth
sleuth salmon rna-seq written 5 months ago by koaeb • 10 • updated 5 months ago by dsull • 1.7k
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1
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Error in H5Fopen(file, "H5F_ACC_RDONLY", native = native) : HDF5. File accessibilty. Unable to open file.
software error biomart sleuth rna-seq kallisto written 8 months ago by ladavion • 10 • updated 6 months ago by jocelyn.petitto • 10
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287
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Create a custom filter for pachterlab Sleuth package for RNAseq data
R sleuth kallisto rna-seq written 7 months ago by jonathanU • 40
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get gene ids running sleuth kallisto for differential gene expression
sleuth kallisto rna-seq written 4.8 years ago by frida.danielsson • 40 • updated 7 months ago by jocelyn.petitto • 10
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2
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Using Gencode transcript annotation in Kallisto / Sleuth pipeline
sleuth kallisto gencode rna-seq written 11 months ago by Jordan • 0 • updated 10 months ago by brown.annaleigh • 10
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1
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641
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1
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How to subset a sleuth object ? (filter on samples)
R sleuth rna-seq written 18 months ago by alexandra.d38 • 0 • updated 13 months ago by camejo.pamela • 0
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480
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Sleuth analysis with unbalanced categories
sleuth kallisto rna-seq written 20 months ago by dlukacsovich • 0
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1
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R formula in RNA-Seq differential analysis with multiple parameters
R sleuth deseq2 rna-seq statistics written 3.1 years ago by Thibault D. • 690 • updated 20 months ago by Biostar ♦♦ 20
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Kallisto/Sleuth DTE analysis - LRT test results in more DTE compared to Wald test.
sleuth rna-seq written 20 months ago by MK • 0
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573
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1
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Complicated Multi-factor Differential Expression
rnaseq multifactor sleuth differential expression written 2.1 years ago by gradstudentNew • 30 • updated 2.1 years ago by Charles Warden ♦ 8.0k
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2
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2.3k
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5 follow
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kallisto + sleuth: no results
R sleuth kallisto rna-seq written 3.5 years ago by stephanie.devos • 0 • updated 2.1 years ago by gilbo • 20
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1
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Is Sleuth a good package?
R sleuth kallisto rna-seq written 4.3 years ago by SmallChess • 540
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What is the Sleuth intercept and how can Sleuth be used when you have >2 treatment types?
sleuth salmon kallisto rna-seq dte written 4.0 years ago by james.lloyd • 100 • updated 2.2 years ago by lalvarez • 10
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818
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Problem with plot_bootstrap function in sleuth
R sleuth rna-seq transcriptome written 2.2 years ago by lalvarez • 10
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How to run sleuth in single run mode?
sleuth kallisto rna-seq written 2.2 years ago by aquaq • 30
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Is Kallisto Sleuth pipeline suitable for all organisms?
sleuth kallisto rna-seq written 2.6 years ago by SMILE • 130 • updated 2.4 years ago by prasundutta87 • 390
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1
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Comparison and cross-sample normalization for RNAseq from different experiments
kalliso normalization sleuth deseq2 rna-seq written 2.4 years ago by urjaswita • 90 • updated 2.4 years ago by Devon Ryan ♦ 98k
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1.9k
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1
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Sleuth PCA plots - how to change axis to percentage?
R sleuth pca kallisto rna-seq written 3.4 years ago by BioBing • 130 • updated 2.6 years ago by bruce.moran • 860
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7 follow
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Paired and Multivariate sleuth
R sleuth kallisto rna-seq written 3.5 years ago by Tim D • 70 • updated 2.7 years ago by samantha_jeschonek • 50
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Sleuth_prep error in R - unused argument
software error R sleuth kallisto rna-seq written 2.9 years ago by Abiterkuile • 20
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add gene names from RefSeq instead of ENSEMBL using biomaRT for sleuth when reading kallisto output
sleuth alignment refseq biomart rna-seq written 2.9 years ago by Abiterkuile • 20 • updated 2.9 years ago by Emily_Ensembl ♦ 21k
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Is there a fair way to compare beta values from Sleuth output to the log Fold changes from EdgeR?
beta value sleuth edger rna-seq fold change written 2.9 years ago by cristina.osuna.cruz • 10
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Kallisto quant output file abundance.tsv and run_info.json missing
sleuth alignment kallisto rna-seq written 2.9 years ago by Abiterkuile • 20 • updated 2.9 years ago by Kevin Blighe ♦ 69k
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kallisto/sleuth for single sample pathway enrichment
sleuth kallisto rna-seq pathway enrichment written 2.9 years ago by endre.sebestyen • 10 • updated 2.9 years ago by Rik Verdonck • 50
3
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2.8k
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Configuring sleuth for log2FC - What are the dangers?
sleuth rna-seq written 2.9 years ago by Lorenz Becker • 20
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How do I create a Sleuth Wald Test
R sleuth bioconductor rna-seq written 2.9 years ago by scottschu97 • 10 • updated 2.9 years ago by Kevin Blighe ♦ 69k
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