Showing : Ballgown • reset
1
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2
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246
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DGE analysis for diseased samples through DESeq2 and Ballgown
DESeq2 DGEanalysis ballgown Ballgown DiseasedvsNormal
4 months ago Bushra • 0
0
votes
1
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811
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is.null(pData) | class(pData) == "data.frame" is not TRUE
ballgown
updated 2.2 years ago by 16k • written 2.2 years ago by • 0
1
vote
5
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2.2k
views
Error in stattest function
R rnaseq Ballgown
updated 2.5 years ago by • 0 • written 5.8 years ago by • 0
0
votes
1
reply
828
views
Ballgown stattest: Why do p-values change when changing filtration?
ballgown
updated 3.1 years ago by ★ 1.0k • written 3.1 years ago by • 0
0
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0
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1.1k
views
HISAT2/StringTie/Ballgown for Novel Transcript Isoform Differential Expression
isoform RNA-seq hisat2 stringtie ballgown
3.1 years ago ra711 • 0
0
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1
reply
1.0k
views
Error loading sample and control data using Ballgown due to different i_id in i_data.ctab
ballgown i_data.ctab differential gene expression
updated 3.2 years ago by ▴ 210 • written 3.2 years ago by • 0
0
votes
3
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1.2k
views
StringTie output as Ballgown input
ballgown StringTie galaxy rnaseq
updated 17 months ago by 3.9k • written 3.3 years ago by • 0
1
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2
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712
views
Regularization of ballgown object on Limma
limma ballgown RNA-seq
3.8 years ago komuracom16 • 0
0
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0
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678
views
Is the ballgownrsem function still supported?
ballgown rsem iranges
3.9 years ago YH • 0
0
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0
replies
540
views
ballgown -- how is statistical test performed
ballgown rna-seq
4.2 years ago michael • 0
0
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0
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498
views
ballgown: how to test for DE for my experimental setup
ballgown rna-seq
4.2 years ago michael • 0
0
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0
replies
1.6k
views
Error in contrasts<-(tmp, value = contr.funs[1 + isOF[nn]]) : contrasts can be applied only to factors with 2 or more levels
software error ballgown rstudio R stattest
4.6 years ago fatimarasool135 • 0
1
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2
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958
views
Ballgown Error .null(pData) | class(pData) == "data.frame" are not all TRUE
software error ballgown
updated 4.8 years ago by ▴ 210 • written 4.8 years ago by • 0
2
votes
2
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1.3k
views
Different DEG results using Ballgown and edgeR
edger ballgown rnaseq batch effect adjustvars
updated 4.9 years ago by 48k • written 4.9 years ago by • 0
0
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0
replies
953
views
Error while loading the data structrure in the ballgown tool
ballgown rnaseq differential gene expression new tuxedo pipleine
5.0 years ago Mithil Gaikwad • 0
0
votes
1
reply
2.0k
views
Can not install packages
ballgown genefilter RskittleBrewer
updated 5.1 years ago by ★ 6.2k • written 5.1 years ago by • 0
0
votes
0
replies
728
views
Aboutfc value in stringtie hisat2 ballgown pipeline
ballgown r ballgown
5.1 years ago viv333chavan • 0
0
votes
1
reply
695
views
Understanding the output from Ballgown for DE
changes ballgown
5.1 years ago amy16 • 0
0
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0
replies
670
views
R script to fix the error in dataframe when using ballgown for differentially expression analysis
r ballgown code error
5.1 years ago amy16 • 0
0
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3
replies
1.4k
views
Ballgown differential expression by exon problem
ballgown
5.2 years ago new_user • 0
0
votes
1
reply
1.7k
views
Issue using ballgown
software error ballgown genomeinfodbdata genomeinfodb
updated 5.2 years ago by 64k • written 5.2 years ago by • 0
0
votes
2
replies
841
views
Including batch effects in the differential expression of gene analysis
ballgown new tuxedo pipleine
updated 5.2 years ago by 64k • written 5.2 years ago by • 0
1
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1
reply
676
views
ballgown bamfiles vector
ballgown
5.3 years ago jac1318 • 0
0
votes
1
reply
673
views
Ballgown Plotmeans problem
ballgown
5.3 years ago new_user • 0
0
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0
replies
839
views
IRanges error while input rsem data into ballgown : .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges")
ballgown rsem iranges
5.4 years ago kicheol.kim • 0
1
vote
0
replies
1.9k
views
IRanges error while input rsem data into ballgown : .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges")
ballgown rsem iranges
5.4 years ago kicheol.kim • 0
0
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1
reply
885
views
Error loading data, pheno_data names in 1st column do not match ballgown/sample dir names.
ballgown
5.4 years ago harris • 0
1
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0
replies
1.1k
views
covariate vs adjustvars
ballgown rnaseq differential gene expression tuxedo
5.4 years ago justinjj ▴ 10
0
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0
replies
873
views
pair wise ballgown
ballgown differential expression
5.4 years ago zoe.ward • 0
0
votes
1
reply
837
views
Interactions and contrasts for DE analysis in ballgown
ballgown R RNAseq DE interactions
updated 5.4 years ago by 64k • written 5.4 years ago by • 0
0
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1
reply
737
views
Ballgown for differential expressed genes
ballgown
5.5 years ago marasodi • 0
0
votes
2
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905
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Ballgown for differential expressed genes
ballgown
updated 5.5 years ago by 64k • written 5.5 years ago by • 0
1
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2
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842
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RNA-Seq differential analysis with ballgown, getting more significantly deferentially expressed genes than significantly deferentially expressed tra…
ballgown
updated 5.5 years ago by 64k • written 5.5 years ago by • 0
0
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0
replies
1.6k
views
RNA-seq with hisat2+stringtie+ballgown
hisat2 stringtie ballgown RNAseq
5.8 years ago • updated 5.6 years ago Nancy ▴ 10
0
votes
0
replies
1.2k
views
Ballgown data processing error
Ballgown Stringtie DEG rnaseq
5.6 years ago vharshavardhanan • 0
0
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0
replies
638
views
pairwise comparison with ballgown
ballgown
5.6 years ago behnam.derakhshani • 0
0
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0
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742
views
Model problem using ballgown
ballgown linear models
5.6 years ago Yong Li ▴ 50
0
votes
1
reply
793
views
ballgown time course design and command confirmation
ballgown stattest multiple time points
5.6 years ago yadongxue • 0
0
votes
3
replies
1.7k
views
Error and warning message when reading the ballgown object
software error illumina DEG ballgown tuxedo
updated 5.6 years ago by 64k • written 5.6 years ago by • 0
0
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0
replies
649
views
Ballgown data read error
ballgown software error
5.6 years ago amy16 • 0
5
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14
replies
6.9k
views
DESeq2 vs Ballgown results
ballgown deseq2
5.7 years ago CE ▴ 20
1
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1
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1.2k
views
What is the exact formula for the calculation of Fold Change (FC), p-val and q-val in Ballgown stattest?
ballgown stattest fold change
updated 5.7 years ago by 64k • written 5.7 years ago by ▴ 80
2
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4
replies
1.5k
views
error reading ballgown object
R ballgown
5.8 years ago l.j.leach • 0
0
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0
replies
700
views
Subset functionin R
R ballgown rnaseq
5.8 years ago amy16 • 0
0
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0
replies
732
views
Accessing the assembly data-output
R rnaseq ballgown
5.8 years ago amy16 • 0
0
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3
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1.6k
views
error in filtering genes with rowVars(gexpr(bg_chrX)) >1
genefilter ballgown
updated 5.9 years ago by • 0 • written 6.3 years ago by • 0
1
vote
3
replies
2.4k
views
Multiple pairwise comparisons in ballgown
ballgown
updated 5.9 years ago by ▴ 210 • written 5.9 years ago by ▴ 10
1
vote
2
replies
1.4k
views
Error in reading ballgown object
R ballgown
updated 5.9 years ago by ▴ 210 • written 5.9 years ago by • 0
0
votes
7
replies
2.3k
views
Handling both technical and biological replicates in Ballgown
ballgown biologicalreplicates technical replicates stringtie
updated 6.0 years ago by ▴ 210 • written 6.7 years ago by • 0
1
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1
reply
1.2k
views
RNA-seq for DGE
stringtie illumina hisat2 ballgown
updated 6.0 years ago by ▴ 120 • written 6.0 years ago by • 0
50 results • Page 1 of 1
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Comment: Ensembl down??? by bas_work ▴ 20
I want to link 'external_gene_names' (mouse, multiple lists) with the ensembl gene IDs and HGNC symbols of human orthologues using getLDS()…
Answer: SingleR Book Not Found by Peter Hickey ▴ 650
It's not gone, but it also hasn't successfully built since the most recent Bioconductor release ([https://bioconductor.org/checkResults/rel…
Answer: tximport: Error in is(txi, "list") : argument "txi" is missing, with no default by James W. MacDonald 64k
The arguments for that function can be found in the help page (accessed using `?DESeqDataSetFromTximport`) ``` Usage: DESeqDataSet(s…
Answer: tximport: Error in is(txi, "list") : argument "txi" is missing, with no default by Michael Love 41k
argument txi is missing, with no default This means the function was expecting a named argument txi Check the man page for the funct…
Comment: Problem loading HDF5Array in R 4.3.2 by Sarah • 0
Thank you so much! This worked! It installed from source with no problem and after restarting my R session, everything loads properly now.…
Votes
Answer: gseGO input list
Comment: Problem loading HDF5Array in R 4.3.2
Answer: tximport: Error in is(txi, "list") : argument "txi" is missing, with no default
Answer: tximport: Error in is(txi, "list") : argument "txi" is missing, with no default
Comment: Ensembl down???
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