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Tissue Specificity R-package
tissue specificity r package package development
updated 7.6 years ago by ▴ 140 • written 7.6 years ago by ▴ 70
0
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2
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1.4k
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Minimum overlap for reads to be counted in summarizeoverlaps
summarizeoverlaps R
updated 7.6 years ago by ★ 6.8k • written 7.7 years ago by • 0
0
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3
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2.0k
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kegga error from edgeR
edger r bioconductor pathway analysis kegg
updated 7.7 years ago by 53k • written 7.7 years ago by ▴ 120
0
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2
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1.5k
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Error retrieving data with biomaRt
biomart r getbm uniprot
7.7 years ago lluex.rova • 0
2
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3
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1.6k
views
Problem in reading .bam files (aligned to transcriptome) with ribofileCR function
R riboseqr ribosome profiling
7.7 years ago bsad • 0
0
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1
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2.2k
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Scan issue retrieving Drosophila Genes with biomaRt
R biomart drosophila melanogaster ensembl
updated 7.7 years ago by ★ 6.6k • written 7.7 years ago by • 0
0
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0
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1.4k
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R code for finding wobble/redundant positions in an RNA string
r code rna wobble
7.7 years ago fawazfebin ▴ 60
1
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2
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1.5k
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Accessing a local version of BioMart (v0.9) using biomaRt
biomart R rest
updated 7.7 years ago by ★ 6.6k • written 7.7 years ago by • 0
2
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0
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1.7k
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Job: Full-time bioinformatics instructor position at Fred Hutch
R shell Python SQL Job
7.7 years ago ematsen ▴ 20
0
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1
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1.7k
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How to draw venn diagram with four CSV files
R SNP venn diagram
updated 7.7 years ago by 68k • written 7.7 years ago by • 0
1
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3
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1.1k
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Errors of loading HilbertVisGUI
R
7.7 years ago xz2256 • 0
0
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6
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8.0k
views
Error in DESeqDataSet(se, design = design, ignoreRank) : all variables in design formula must be columns in colData
deseq2 R genomics
7.7 years ago mokunf • 0
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1.3k
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NOISeq: Need help with my data frame
R noiseq data.frame
7.7 years ago aokoro • 0
2
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4
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2.1k
views
error reading ballgown object
R ballgown
7.7 years ago l.j.leach • 0
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0
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1.1k
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Subset functionin R
R ballgown rnaseq
7.7 years ago amy16 • 0
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0
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1.1k
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Accessing the assembly data-output
R rnaseq ballgown
7.7 years ago amy16 • 0
0
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1
reply
919
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ExpressionSet annotation with custom annotation file
annotation microarray R
7.7 years ago genesignature • 0
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1
reply
1.1k
views
Counting the number of paralogues for mouse genes gives me the wrong frequency
R bioconductor biomart bioinformatics
7.7 years ago Jack • 0
0
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1
reply
983
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getPages() in SNPediaR returning a lexical error
software error bioconductor R snpediar getpages
7.7 years ago johnzaharick • 0
0
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0
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1.3k
views
batch blast matrix of protein sequences from R
R blast blastsequences protein
7.7 years ago andres.susrud • 0
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0
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954
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PWMEnruch: Error in getPromoters(organism)
r pwmenrich
7.7 years ago prp291 • 0
0
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0
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978
views
MSGFgui loading problem (cannot upload or add data)
software error R msgfgui
7.7 years ago laural710 • 0
4
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5
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3.1k
views
MasigPro and estimation of theta for negative binomial law
R masigpro edgr rnaseq negative binomial model
7.7 years ago nicolas.hipp ▴ 20
3
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5
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6.5k
views
Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
7.7 years ago martinguerrerog89 ▴ 20
0
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4
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1.2k
views
how can I annotate some of my genes
biomart r
updated 7.7 years ago by ★ 6.6k • written 7.7 years ago by ▴ 30
1
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1
reply
1.4k
views
object 'feaMeasurements' not found for MSstats
R msstats
updated 7.7 years ago by • 0 • written 7.8 years ago by ▴ 10
2
votes
4
replies
1.9k
views
DiffBind report and MA-plot DB difference
diffbind differential binding analysis R report
updated 7.7 years ago by ★ 5.2k • written 7.7 years ago by • 0
0
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2
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1.5k
views
Differential analysis between single sample vs single sample (control vs treatment) with no replicates
r bioconductor limma edger deseq2
updated 7.7 years ago by ★ 29k • written 7.7 years ago by ▴ 120
0
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1
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1.7k
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Data object format for deseq2
deseq2 R RSEM
updated 7.7 years ago by 43k • written 7.7 years ago by • 0
1
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2
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2.0k
views
Error in reading ballgown object
R ballgown
updated 7.7 years ago by ▴ 210 • written 7.8 years ago by • 0
0
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2
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2.7k
views
Creating a qPCRset object from a text file
qPCRset object nondetects r package txt
updated 24 months ago by • 0 • written 7.8 years ago by • 0
2
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7
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1.9k
views
modifying compound datasets
R
7.8 years ago harbydonald • 0
2
votes
4
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2.0k
views
Make window around TSS and get values from another data.frame for bins of the specified window
R granges genomicranges chipseq
updated 7.8 years ago by ★ 11k • written 7.8 years ago by ▴ 20
0
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1
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1.4k
views
ChIPQC Error: subscript contains out-of-bounds ranges
R
updated 3.5 years ago by • 0 • written 7.8 years ago by • 0
0
votes
2
replies
3.2k
views
Processing array with R
cdf software error affy R
updated 7.8 years ago by 68k • written 7.8 years ago by • 0
1
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3
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5.3k
views
How to select top 10% highly variable genes in microarray data?
r microarray snp6.0 oligo
updated 7.8 years ago by ▴ 360 • written 7.8 years ago by ▴ 120
5
votes
7
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2.3k
views
Is it possible to do an alignment to a chosen reference sequence in DECIPHER?
R decipher biostrings
updated 7.8 years ago by ▴ 150 • written 7.8 years ago by • 0
0
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2
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1.4k
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Is it possible to import many .tsr sequence file into R using bio strings for use in DECIPHER?
r biostrings decipher
7.8 years ago reubenmcgregor88 • 0
0
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6
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2.7k
views
Add columns to granges object that sum score around range
R Grang r granges rtracklayer
updated 7.8 years ago by ★ 11k • written 7.8 years ago by ▴ 20
2
votes
5
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2.4k
views
Colour a phylogenetic tree, based on column in DECIPHER?
r decipher biostrings
updated 7.8 years ago by ▴ 150 • written 7.8 years ago by • 0
2
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1
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1.7k
views
arrayQualityMetrics: "intgroup" error, groups dropped from x$pData.
arrayqualitymetrics R
updated 7.8 years ago by ★ 6.6k • written 7.8 years ago by ▴ 30
0
votes
1
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1.3k
views
Attempts to create a lolliplot from 1000 genomes .popvcf file using trackViewer generating the error, "Error: all(width(SNP.gr[[i]]) == 1) is not TRU…
bioconductor R trackviewer
updated 7.8 years ago by ★ 1.3k • written 7.8 years ago by • 0
0
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6
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2.0k
views
ENSEMBL causing issues replicating previous results
R ENSEMBL topGO
7.8 years ago snguyen268 • 0
2
votes
4
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2.8k
views
running msa (msa) aborts R session
msa alignment r software error
written 7.9 years ago by • 0
0
votes
1
reply
646
views
Package installation error
R
7.9 years ago amy16 • 0
0
votes
7
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7.1k
views
DESeq estimateSizeFactors() is returning error "Error: all(!is.na(value)) is not TRUE"
deseq2 error R estimatesizefactors zero
updated 3.5 years ago by • 0 • written 8.0 years ago by • 0
1
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1
reply
1.8k
views
Getting OTUID rather than Taxonomy from Results function in DESeq2
deseq2 R microbiome phyloseq qiime
updated 7.9 years ago by 43k • written 7.9 years ago by • 0
0
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3
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1.8k
views
apply Kruskall or other non-parametric test for multiple comparisons
r kruskal ttest nonparametric
7.9 years ago bhgyu ▴ 30
0
votes
4
replies
1.0k
views
DESeq2 normalization without the house keeping genes
deseq2 R
updated 7.9 years ago by 43k • written 7.9 years ago by • 0
3
votes
5
replies
3.6k
views
Found more than one class
r bioconductor
7.9 years ago Kamil Slowikowski ▴ 30
1,163 results • Page 13 of 24
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Comment: gene Set with high AUC score but no cells assigned to cell type by eja.hdrer33ge.r.m • 0
Understanding complex data results like those from AUCell can be challenging. For easier analysis and better data management on the go you …
Comment: "organism" missing in BSgenome.Hsapiens.UCSC.hg38 slotNames by ubjw24 • 0
Thank you for your replies. I got the problem solved by installing mutSignature with this line: ``` devtools::install_github("dami82/mutS…
Comment: DESeq2 design for haplotype MPRA by Rita • 0
Thank you very much, I appreciate it!
Answer: DESeq2 design for haplotype MPRA by Michael Love 43k
> My goal is to identify which non-reference haplotypes are differentially active compared to the corresponding ref/ref haplotype within ea…
Answer: "organism" missing in BSgenome.Hsapiens.UCSC.hg38 slotNames by James W. MacDonald 68k
It seems fine on devel as well. ``` > BSgenome.Hsapiens.UCSC.hg38 | BSgenome object for Human | - organism: Homo sapiens | - provide…
Votes
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
Answer: DESeq2 design for haplotype MPRA
A: Different logFC (log2foldchange) values for genes from limma-voom and other too
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
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