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2
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268
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featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_get_next_read_BIN: Assertion `l_name < 256' failed. Aborted (core dumpe…
metaMSdata
26 days ago • updated 24 days ago
shuwangxinze1996
• 0
0
votes
8
replies
387
views
DESeq2 output used for PCA plot on R studio
DESeq2
RSTUDIO
PCAtools
updated 24 days ago by
swbarnes2
★ 1.4k • written 26 days ago by
Aaliya
• 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
24 days ago • updated 16 days ago
glaciya2018
• 0
0
votes
2
replies
103
views
Problem finding certain variables when importing a public database GSE73103
GSEABase
GenomicDistributionsData
6 days ago • updated 4 days ago
Yveto
• 0
0
votes
0
replies
50
views
determine k during RUVSeq
RUVSeq
RUVnormalize
3 days ago
Ειρήνη
• 0
0
votes
0
replies
74
views
Treeio as.treedata function seq lenght error
treeio
11 days ago
nromerov
• 0
0
votes
0
replies
30
views
ERROR; return code from pthread_create() is 22
affy
1 day ago • updated 7 hours ago
pickingastar
• 0
0
votes
0
replies
68
views
ChIPseeker peak_Profile_Heatmap color palette
ChIPseeker
3 days ago
Anton01
• 0
0
votes
0
replies
18
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
RNASeq
scRNAseq
4 hours ago
Bibi
• 0
0
votes
0
replies
79
views
Recommendations on deploying cytoviewer shiny.appobj to shinyapps.io?
cytoviewer
ShinyApps
9 days ago
neilzhao
▴ 30
0
votes
0
replies
45
views
GAGE results interpretation with gene-foldchange as input for cases of all-negative foldchange
GO
KEGG
gage
pathview
3 days ago
danalvoronov
▴ 10
0
votes
0
replies
39
views
query regarding how to apply WGCNA on replicates
replicatesRNAseq
WGCNA
3 days ago
k200987
• 0
0
votes
3
replies
179
views
ChAMP installation issue
Cha
ChAMP
6 days ago • updated 5 days ago
e1271094
• 0
0
votes
0
replies
99
views
flowStats for CyTOF
flowStats
16 days ago
tholmes
• 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
35
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets
allele_freq
biomaRt
getBM
1 day ago • updated 6 hours ago
Abiologist
• 0
1
vote
2
replies
243
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
120
views
dba.plotProfile() plotting and interpretation
DiffBind
15 days ago
Henry
▴ 10
0
votes
3
replies
100
views
STRINGdb : error with string_db$plot_network()
STRINGdb
updated 2 days ago by
damian.szk
▴ 80 • written 2 days ago by
ninidea
• 0
0
votes
1
reply
1.3k
views
DSS CpG coverage threshold
DSS
WGBS
coverage
updated 10 days ago by
j.gilbert
• 0 • written 6.6 years ago by
floriandeckert
▴ 30
2
votes
7
replies
386
views
deseq2 results
DESeq2
DifferentialExpression
rnaseqGene
DifferentialRegulation
11 days ago • updated 8 days ago
sajadahmad41454
• 0
0
votes
0
replies
99
views
how to do Differential splicing from SGSeq analysis
DEXSeq
SGSeq
25 days ago • updated 20 days ago
Sara
• 0
0
votes
3
replies
225
views
Differences in differential analysis methods for RNA-Seq
DESeq2
StatisticalMethod
Proteomics
DifferentialExpression
RNASeq
updated 17 days ago by
ATpoint
★ 4.1k • written 17 days ago by
james.zhang20
• 0
0
votes
0
replies
14
views
Spam:
Unveiling Unmatched Best Custom Patches
SIMAT
3 days ago
oliverelijhan
0
0
votes
0
replies
92
views
DiffBind: no peaks in DBA object
DiffBind
macs2
chipseq
17 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 25 days ago by
Guangchuang Yu
★ 1.2k • written 14 months ago by
ruiqi.li
▴ 10
0
votes
0
replies
97
views
Exon-exon Junction Analysis for Variable-length Exons
Rsubread
25 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
20 days ago • updated 19 days ago
Chris
▴ 10
0
votes
0
replies
39
views
Difference in Contrast in DiffBind
DiffBind
4 days ago
zzrammal
• 0
0
votes
0
replies
50
views
ReactomeGSA for RNASeq
ReactomeGSA
BatchEffect
RNASeqData
3 days ago
Shaimaa Gamal
• 0
0
votes
0
replies
95
views
Unlocking Potential: NURS FPX Strategies and Insights
levi
NURSFPX
ragene20sttranscriptcluster.db
ssrch
28 days ago
vaxahey107
• 0
0
votes
0
replies
106
views
I am trying to detect alternative splicing.
ASpli
29 days ago
Sebashish
• 0
0
votes
4
replies
269
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
4 weeks ago • updated 29 days ago
lonn
• 0
0
votes
0
replies
140
views
Empty table plot using plotGseaTable()
fgsea
17 days ago • updated 15 days ago
Chris
▴ 10
0
votes
0
replies
55
views
QSEA- Extraction of Normalized methylation across the samples
qsea
ngsReports
correlation
5 days ago
Researcher
• 0
0
votes
0
replies
94
views
need help with Diffbind multiple groups
DiffBind
ChIPSeqData
12 days ago
Dinesh
• 0
0
votes
0
replies
87
views
How to create consensus peak sets for each group to use in DiffBind?
DiffBind
17 days ago
Ian D.
▴ 70
37 results • Page
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Answer: all variables in design formula must be columns in colData (Deseq2) error
by
ATpoint
★ 4.1k
Your code is poorly readable. Suggest you select and then highlight with markdown using the `10101` button. Generally, colData(dds) must…
Answer: Subsetting RNAseq data | voomaByGroup()
by
Gordon Smyth
50k
Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
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!
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
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