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Annotationhub
•
reset
0
votes
4
replies
1.9k
views
AnnotationHub Error HTTP status was '500 Internal Server Error'
annotationhub
software error
7.1 years ago
ness
• 0
5
votes
11
replies
1.7k
views
Certificate problem with ExperimentHub / AnnotationHub
software error
curatedmetagenomicdata
annotationhub
experimenthub
updated 6.1 years ago by
Levi Waldron
1.1k • written 6.1 years ago by
morganx
▴ 10
7
votes
11
replies
5.8k
views
Error in sqliteSendQuery(conn, statement): error in statement: no such table: c.probes
edgeR
limma
annotationhub
kegga
annotationdbi
updated 6.6 years ago by
cagenet34
▴ 20 • written 6.9 years ago by
Rinaldo Bertossa
▴ 20
11
votes
13
replies
1.8k
views
How to retrieve genomic coordinates for a list of entrezID and their respective gene names
genomic
AnnotationHub
GenomicRanges
org.Hs.eg.db
2.2 years ago • updated 24 months ago
rohitsatyam102
▴ 20
3
votes
9
replies
3.1k
views
AnnotationHub corrupt database
annotationhub
updated 3.9 years ago by
shepherl
3.4k • written 7.5 years ago by
Koen Van den Berge
▴ 180
8
votes
9
replies
2.1k
views
Where can I find EnsDb.Hsapiens.v105?
Ensembl
Rstudio
ensembldb
AnnotationHub
ensdb
updated 12 months ago by
Hervé Pagès
16k • written 12 months ago by
jon.klonowski
▴ 40
0
votes
5
replies
1.0k
views
AnnotationHub() returns only one record !?
annotationhub
updated 6.9 years ago by
Valerie Obenchain
★ 6.7k • written 6.9 years ago by
jean.monlong
• 0
1
vote
5
replies
676
views
AnnotationHub; Error: failed to load resource; Timeout was reached: [annotationhub.bioconductor.org]
annotationhub
updated 2.8 years ago by
shepherl
3.4k • written 2.8 years ago by
dilaik
• 0
2
votes
12
replies
1.8k
views
AnnotationHub-cant extract database
annotationhub
updated 5.8 years ago by
Valerie Obenchain
★ 6.7k • written 5.8 years ago by
ecpierce
• 0
2
votes
12
replies
2.4k
views
Error: failed to load 'AnnotationHub' resource
biomart
annotationhub
updated 7.2 years ago by
Martin Morgan
25k • written 7.2 years ago by
borowczak.marc
▴ 10
3
votes
6
replies
964
views
How to manage AnnotationHub snapshots / most OrgDB are missing?
AnnotationHub
OrgDb
snapshotDate
updated 6 months ago by
shepherl
3.4k • written 2.7 years ago by
Jenny Drnevich
★ 2.0k
4
votes
3
replies
1.6k
views
Error installing AnnotationHub on Fedora
Annotationhub
curl
httr
fedora
updated 6.7 years ago by
anastazie.d
▴ 20 • written 7.4 years ago by
barashe
▴ 10
1
vote
6
replies
2.7k
views
failed to load 'AnnotationHub' resource
annotationhub
annotation
error
7.1 years ago
elhananby
▴ 10
4
votes
6
replies
772
views
OrgDb (org.Hs.eg.db) missing many EntrezIDs and their Symbols (Compared to Ensembl GRChg8 v103)
AnnotationHub
OrganismDbi
org.Hs.eg.db
updated 10 months ago by
Gordon Smyth
47k • written 10 months ago by
Nathan
• 0
0
votes
3
replies
1.0k
views
RefNet: source/data preparation used for Gerstein et al (2012) human TF data?
refnet
annotationhub
updated 7.6 years ago by
pshannon
▴ 100 • written 7.7 years ago by
Keith Hughitt
▴ 180
0
votes
14
replies
3.4k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub
AnnotationDbi
AnnotationForge
pathview
6.0 years ago • updated 5 months ago
Jenny Drnevich
★ 2.0k
9
votes
21
replies
12k
views
ah <- AnnotationHub() Error in UseMethod("filter_"): no applicable method for 'filter_' applied to an object of class "c('tbl_SQLiteConnection', 'tb…
AnnotationHub
dplyr
updated 6 months ago by
SmallChess
▴ 10 • written 2.2 years ago by
georgia.katsoula
▴ 40
0
votes
2
replies
729
views
AnnotationHub downloading dataset fail
annotationhub
download_error
updated 5.4 years ago by
James W. MacDonald
62k • written 5.4 years ago by
vitay.dora
• 0
0
votes
3
replies
866
views
"quiet" mode for AnnotationHub?
AnnotationHub
6.1 years ago
Robert K. Bradley
▴ 40
2
votes
6
replies
1.0k
views
R getting "stuck" with RoadMap resource retrieval through AnnotationHub
roadmap project
annotationhub
5.7 years ago
vanesa_1230
• 0
7
votes
44
replies
2.6k
views
OrgDB download failed via AnnotationHub
annotationhub
orgdb
updated 3.6 years ago by
shepherl
3.4k • written 3.6 years ago by
chirag.parsania
• 0
1
vote
3
replies
485
views
Problem with AnnotationHub after crash during first download of metadata
AnnotationHub
updated 3.4 years ago by
shepherl
3.4k • written 3.4 years ago by
konstantinos.bogias
▴ 10
1
vote
7
replies
987
views
mismatch between AnnotationHub ensembl v71 hsapiens and direct download using rtracklayer
annotationhub
updated 6.0 years ago by
Valerie Obenchain
★ 6.7k • written 6.0 years ago by
mviterson
▴ 10
1
vote
3
replies
2.4k
views
Problem using display() function on RStudio
display
rstudio
annotationhub
updated 7.4 years ago by
James W. MacDonald
62k • written 7.4 years ago by
barashe
▴ 10
0
votes
1
reply
767
views
AnnotationHub snapshotDate() behavior in Bioconductor 3.1
AnnotationHub
updated 7.8 years ago by
Marc Carlson
★ 7.2k • written 7.8 years ago by
jbyars
• 0
0
votes
1
reply
917
views
News:
OrgDbs in AnnotationHub
annotationhub
orgdb
News
5.2 years ago
shepherl
3.4k
3
votes
13
replies
1.8k
views
Org.db: why a supposed unique key (ID) has multiple entries?
annotationhub
organismdb
orgdb
unsupported organisms
updated 7.0 years ago by
Valerie Obenchain
★ 6.7k • written 7.0 years ago by
Guido Hooiveld
★ 3.5k
0
votes
1
reply
910
views
querying annotation hub for common TF, in common cell line returns no results....
annotate
annotationhub
updated 5.4 years ago by
shepherl
3.4k • written 5.4 years ago by
chrisclarkson100
▴ 50
3
votes
3
replies
1.0k
views
Broken AnnotationHub resource (AH25517 | wgEncodeOpenChromDnaseGm12878Pk.narrowPeak.gz)
annotationhub
encode
updated 6.8 years ago by
Valerie Obenchain
★ 6.7k • written 6.9 years ago by
Peter Hickey
▴ 630
2
votes
2
replies
1.5k
views
Normal Patient Samples from GSE62944
GSE62944
annotationhub
differentialexpression
updated 6.8 years ago by
Sonali Arora
▴ 380 • written 6.8 years ago by
hamda.binte.ajmal
• 0
2
votes
8
replies
1.4k
views
Problem fetching resources from AnnotationHub, error 403
AnnotationHub
updated 7.2 years ago by
Valerie Obenchain
★ 6.7k • written 7.2 years ago by
Johannes Rainer
★ 2.0k
4
votes
10
replies
987
views
Suggestion: spinning wheel for AnnotationHub
annotationhub
updated 5.4 years ago by
shepherl
3.4k • written 5.4 years ago by
Michael Love
39k
0
votes
2
replies
692
views
Trouble loading Roadmap data from AnnotationHub
annotationhub
updated 5.3 years ago by
shepherl
3.4k • written 5.3 years ago by
bletteb18
• 0
0
votes
6
replies
887
views
initialization of AnnotationHub() in version 2.12.0 is problematically verbose
AnnotationHub
updated 4.7 years ago by
Martin Morgan
25k • written 4.7 years ago by
Robert K. Bradley
▴ 40
1
vote
6
replies
1.6k
views
Problem with AnnotationHub()
annotationhub
updated 6.1 years ago by
Valerie Obenchain
★ 6.7k • written 6.1 years ago by
rex.burger
▴ 10
0
votes
5
replies
1.3k
views
Why are important organisms missing from AnnotationHub() $rdataclass == "OrgDb"?
annotationhub
orgdb
updated 7.2 years ago by
Valerie Obenchain
★ 6.7k • written 7.2 years ago by
efoss
▴ 10
0
votes
1
reply
1.5k
views
Map siRNA-Sequence to Gene
sequence
annotationhub
biostrings
updated 7.5 years ago by
Hervé Pagès
16k • written 7.5 years ago by
antje.janosch
• 0
0
votes
1
reply
1.3k
views
Additions to AnnotationHub (for example, CpG islands for hg38 and mm10)
annotationhub
updated 6.2 years ago by
Valerie Obenchain
★ 6.7k • written 6.2 years ago by
rcavalca
▴ 140
1
vote
4
replies
840
views
Create a GmapGenome from a FaFile from AnnotationHub
gmapr
gmapgenome
annotationhub
fafile
updated 7.2 years ago by
Michael Lawrence
11k • written 7.2 years ago by
Johannes Rainer
★ 2.0k
0
votes
2
replies
1.1k
views
bad restore file magic number with AnnotationHub
annotationhub
updated 6.1 years ago by
Valerie Obenchain
★ 6.7k • written 6.2 years ago by
jason.serviss
• 0
0
votes
4
replies
791
views
error with downloading AnnotationHub item AH134
AnnotationHub
updated 6.3 years ago by
Valerie Obenchain
★ 6.7k • written 6.3 years ago by
Robert K. Bradley
▴ 40
5
votes
2
replies
862
views
AnnotationHub: two broad peaks from same url are not the same
annotationhub
bugs
encode
bed
6.1 years ago
wcstcyx
▴ 30
1
vote
1
reply
774
views
GRASP2 truncated phenotype descriptions
grasp2
grasp2db
annotationhub
updated 7.2 years ago by
Martin Morgan
25k • written 7.2 years ago by
gokcen.eraslan
▴ 10
0
votes
2
replies
631
views
Can't select GO from AnnotationHub orgDB packages
GO.db
AnnotationHub
OrgDB
updated 2.5 years ago by
James W. MacDonald
62k • written 2.5 years ago by
Jenny Drnevich
★ 2.0k
3
votes
2
replies
1.2k
views
AnnotationHub: A RPKM data.frame of Epigenomics RoadMap Project seems strange
annotationhub
roadmap project
rpkm
data.frame
6.3 years ago
wcstcyx
▴ 30
0
votes
3
replies
1.1k
views
AnnotationHub's NCBI OrgDB have older EGSOURCEDATE than org.Xy.eg.db?
AnnotationHub
updated 6.4 years ago by
Valerie Obenchain
★ 6.7k • written 6.4 years ago by
Jenny Drnevich
★ 2.0k
4
votes
7
replies
1.0k
views
AnnotationHub and ExperimentHub make "~" directory in my home
annotationhub
experimenthub
updated 6.4 years ago by
Valerie Obenchain
★ 6.7k • written 6.4 years ago by
Michael Love
39k
0
votes
4
replies
991
views
Error in GOFrame due to NA for unsupported organism (Gene Ontology)
reportingtools
annotationhub
gostats
updated 6.6 years ago by
James W. MacDonald
62k • written 6.6 years ago by
cagenet34
▴ 20
1
vote
2
replies
1.3k
views
AnnotationHub: change download location of database
annotationhub
installation
updated 7.2 years ago by
Martin Morgan
25k • written 7.2 years ago by
Guido Hooiveld
★ 3.5k
0
votes
2
replies
1.1k
views
Generating database with non model species to be use by ReportingTools
reportingtools
annotationdbi
annotationhub
ensembldb
updated 6.6 years ago by
Johannes Rainer
★ 2.0k • written 6.6 years ago by
cagenet34
▴ 20
50 results • Page
1 of 1
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Replies
Comment: Empty ChipQC Report
by
Okan
• 0
Hi, I have the same issue. Have you found any solution or any reason why this is happening?
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
Gordon Smyth
47k
Am I understanding correctly that you have 24 RNA-seq libraries in total, 6 from the pooled samples and 18 from regular samples with biolog…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
k.roelfs
• 0
I'm sorry, I know it is kinda confusing... We have 6 pools in total: Phenotype A: T1a, T2, T1b, T1c Phenotype B: T1, T2 Each pool consist…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
Gordon Smyth
47k
Sorry, I don't understand your experiment. You are reading the edgeR Section on on what to do without replicates, but your experiment appe…
Answer: MA plot
by
Nathalie
• 0
Thank you very much for your help and comments. There is errors in my file. BaseMean is BaseMeanLog2. I don't know how insert a file.
Votes
Volcano Plot in R
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
Answer: MA plot
Answer: MA plot
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