0
votes
1
reply
1.3k
views
DSS CpG coverage threshold
DSS WGBS coverage
updated 9 days ago by • 0 • written 6.6 years ago by ▴ 30
0
votes
0
replies
89
views
need help with Diffbind multiple groups
DiffBind ChIPSeqData
12 days ago Dinesh • 0
0
votes
0
replies
41
views
GAGE results interpretation with gene-foldchange as input for cases of all-negative foldchange
GO KEGG gage pathview
2 days ago danalvoronov ▴ 10
0
votes
8
replies
385
views
DESeq2 output used for PCA plot on R studio
DESeq2 RSTUDIO PCAtools
updated 23 days ago by ★ 1.4k • written 25 days ago by • 0
0
votes
2
replies
96
views
Problem finding certain variables when importing a public database GSE73103
GSEABase GenomicDistributionsData
5 days ago • updated 4 days ago Yveto • 0
0
votes
0
replies
143
views
One error problem occurred caused by data type during using GDCprepare function of TCGAbiolinks to handle TCGAbiolinks BRCA data
GDCRNATools TCGA
23 days ago • updated 15 days ago glaciya2018 • 0
0
votes
0
replies
138
views
Empty table plot using plotGseaTable()
fgsea
17 days ago • updated 15 days ago Chris ▴ 10
0
votes
0
replies
73
views
Recommendations on deploying cytoviewer shiny.appobj to shinyapps.io?
cytoviewer ShinyApps
9 days ago neilzhao ▴ 30
0
votes
0
replies
47
views
determine k during RUVSeq
RUVSeq RUVnormalize
2 days ago Ειρήνη • 0
0
votes
3
replies
173
views
ChAMP installation issue
Cha ChAMP
5 days ago • updated 4 days ago e1271094 • 0
0
votes
0
replies
98
views
flowStats for CyTOF
flowStats
16 days ago tholmes • 0
0
votes
2
replies
266
views
featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_get_next_read_BIN: Assertion `l_name < 256' failed. Aborted (core dumpe…
metaMSdata
25 days ago • updated 23 days ago shuwangxinze1996 • 0
0
votes
0
replies
94
views
Unlocking Potential: NURS FPX Strategies and Insights
levi NURSFPX ragene20sttranscriptcluster.db ssrch
27 days ago vaxahey107 • 0
2
votes
13
replies
481
views
Trying to use enrichGO
clusterProfiler GenomicDistributionsData KEGG
27 days ago • updated 24 days ago fernanda.backsouza ▴ 10
0
votes
0
replies
24
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets allele_freq biomaRt getBM
14 hours ago • updated 10 hours ago Abiologist • 0
1
vote
2
replies
230
views
How can I create a eigencorplot of pca created from deseq2 object with PCAtools
DESeq2 eigencorplot PCAtools
5 days ago • updated 2 days ago BioinfGuru ▴ 30
0
votes
0
replies
118
views
dba.plotProfile() plotting and interpretation
DiffBind
15 days ago Henry ▴ 10
0
votes
0
replies
36
views
query regarding how to apply WGCNA on replicates
replicatesRNAseq WGCNA
2 days ago k200987 • 0
0
votes
3
replies
89
views
STRINGdb : error with string_db$plot_network()
STRINGdb
updated 1 day ago by ▴ 80 • written 1 day ago by • 0
2
votes
7
replies
375
views
deseq2 results
DESeq2 DifferentialExpression rnaseqGene DifferentialRegulation
10 days ago • updated 7 days ago sajadahmad41454 • 0
0
votes
0
replies
99
views
how to do Differential splicing from SGSeq analysis
DEXSeq SGSeq
24 days ago • updated 19 days ago Sara • 0
0
votes
3
replies
222
views
Differences in differential analysis methods for RNA-Seq
DESeq2 StatisticalMethod Proteomics DifferentialExpression RNASeq
updated 16 days ago by ★ 4.1k • written 16 days ago by • 0
0
votes
0
replies
14
views
Spam: Unveiling Unmatched Best Custom Patches
SIMAT
2 days ago oliverelijhan 0
0
votes
0
replies
91
views
DiffBind: no peaks in DBA object
DiffBind macs2 chipseq
16 days ago yvonneh • 0
1
vote
3
replies
891
views
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
clusterProfiler RNASeq
updated 24 days ago by ★ 1.2k • written 14 months ago by ▴ 10
0
votes
0
replies
97
views
Exon-exon Junction Analysis for Variable-length Exons
Rsubread
24 days ago Dario Strbenac ★ 1.5k
0
votes
0
replies
95
views
Could we detect difference at pathway level but not significant different at gene level?
GSVA
19 days ago Chris ▴ 10
0
votes
0
replies
34
views
Difference in Contrast in DiffBind
DiffBind
3 days ago zzrammal • 0
0
votes
0
replies
47
views
ReactomeGSA for RNASeq
ReactomeGSA BatchEffect RNASeqData
2 days ago Shaimaa Gamal • 0
0
votes
0
replies
105
views
I am trying to detect alternative splicing.
ASpli
28 days ago Sebashish • 0
0
votes
0
replies
50
views
QSEA- Extraction of Normalized methylation across the samples
qsea ngsReports correlation
4 days ago Researcher • 0
0
votes
0
replies
63
views
ChIPseeker peak_Profile_Heatmap color palette
ChIPseeker
2 days ago Anton01 • 0
0
votes
0
replies
16
views
ERROR; return code from pthread_create() is 22
affy
10 hours ago pickingastar • 0
0
votes
0
replies
12
views
Subsetting RNAseq data | voomaByGroup()
limma
9 hours ago Anna • 0
0
votes
2
replies
283
views
Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
featureCounts Rsubread
6 weeks ago • updated 29 days ago isaac.vock • 0
0
votes
0
replies
71
views
Treeio as.treedata function seq lenght error
treeio
10 days ago nromerov • 0
0
votes
4
replies
265
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind DESeq2 ATACSeq
4 weeks ago • updated 28 days ago lonn • 0
0
votes
0
replies
86
views
How to create consensus peak sets for each group to use in DiffBind?
DiffBind
16 days ago Ian D. ▴ 70
38 results • Page 1 of 1
Recent ...
Replies
Answer: Numerical differences in DESeq2 output depending on different design matrix cons by Michael Love 42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs by Michael Love 42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
Awards • All
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to Koen Van den Berge ▴ 180
Popular Question to shepherl 3.9k
Popular Question to Ken C • 0
Popular Question to Johannes Rainer ★ 2.0k
Locations • All
EMBL Heidelberg, 1 hour ago
Sweden, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
The city by the bay, 2 hours ago
UPF, Barcelona, Spain, 2 hours ago
Traffic: 354 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6