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Showing :
Annotationhub
•
reset
3
votes
0
replies
1.8k
views
News:
EnsDb databases for Ensembl release 98 provide now also transcripts' GC content
annotation
ensembldb
EnsDb
AnnotationHub
News
5.9 years ago
Johannes Rainer
★ 2.1k
2
votes
2
replies
1.7k
views
how to choose annotation file in AnnotationHub web server
annotation
AnnotationHub
5.9 years ago
15958021290
▴ 10
3
votes
4
replies
1.6k
views
Are AH52264, AH66175, and AH70594 duplicates?
AnnotationHub
updated 6.0 years ago by
shepherl
4.2k • written 6.0 years ago by
Aditya
▴ 160
1
vote
3
replies
1.5k
views
Problem with AnnotationHub after crash during first download of metadata
AnnotationHub
updated 6.1 years ago by
shepherl
4.2k • written 6.1 years ago by
konstantinos.bogias
▴ 10
7
votes
44
replies
8.0k
views
OrgDB download failed via AnnotationHub
annotationhub
orgdb
updated 6.3 years ago by
shepherl
4.2k • written 6.3 years ago by
chirag.parsania
▴ 10
2
votes
0
replies
1.3k
views
News:
ensembl 96 gtfs and fasta twobits have been added to AnnotationHub
annotationdata
annotationhub
ensembl
gtf
2bit
News
updated 6.4 years ago by
nguyenlieuduoc
• 0 • written 6.5 years ago by
shepherl
4.2k
1
vote
4
replies
1.7k
views
AnnotationHub Server denied you to change the given directory
annotation
annotationhub
updated 6.4 years ago by
shepherl
4.2k • written 6.4 years ago by
bastien.ducreux
▴ 10
0
votes
11
replies
2.7k
views
AH134 and other AnnotationHub objects unavailable as "defunct"
AnnotationHub
updated 6.5 years ago by
shepherl
4.2k • written 6.5 years ago by
Robert K. Bradley
▴ 40
1
vote
1
reply
1.4k
views
The total genes items (e.g. ENTREZ ID, SYMBOL) in OrgDb (Salmo salar; [["AH66207"]]) is just half the gene number in NCBI ?!
Annotationhub
Annotationdb
profiler
annotationdbi
6.5 years ago
wecai
• 0
3
votes
9
replies
4.8k
views
AnnotationHub corrupt database
annotationhub
updated 6.6 years ago by
shepherl
4.2k • written 10.2 years ago by
Koen Van den Berge
▴ 180
0
votes
0
replies
1.3k
views
News:
ensembl 95 gtfs and fasta twobits have been added to AnnotationHub
annotationhub
annotationdata
ensembl
gtf
2bit
News
6.7 years ago
shepherl
4.2k
1
vote
7
replies
1.4k
views
News:
ensembl 94 gtfs and fasta twobits have been added to AnnotationHub
annotationdata
annotationhub
ensembl
gtf
2bit
News
7.0 years ago
shepherl
4.2k
0
votes
5
replies
1.8k
views
annotationhub: data update
annotationhub
updated 7.2 years ago by
shepherl
4.2k • written 7.2 years ago by
Kasper Daniel Hansen
★ 6.5k
0
votes
0
replies
1.2k
views
News:
ensembl 93 gtfs and fasta twobits have been added to AnnotationHub
annotationhub
ensembl
gtf
2bit
annotationdata
News
7.2 years ago
shepherl
4.2k
1
vote
2
replies
2.0k
views
AnnotationHub, force update snapshot date?
annotationhub
updated 7.2 years ago by
shepherl
4.2k • written 7.2 years ago by
Vang Le
▴ 80
5
votes
4
replies
1.9k
views
Eliminating repetitive calls to ExperimentHub
experimenthub
annotationhub
large dataset
7.4 years ago
slinker
▴ 20
0
votes
6
replies
1.7k
views
initialization of AnnotationHub() in version 2.12.0 is problematically verbose
AnnotationHub
updated 7.4 years ago by
Martin Morgan
25k • written 7.4 years ago by
Robert K. Bradley
▴ 40
0
votes
0
replies
1.3k
views
News:
ensembl 92 gtfs and fasta twobits have been added to AnnotationHub
ensembl
gtf
2bit
annotationhub
News
7.5 years ago
shepherl
4.2k
1
vote
0
replies
1.7k
views
News:
ensembl 91 gtfs and fasta twobits have been added to AnnotationHub
annotationhub
ensembl
gtf
2bit
News
7.8 years ago
shepherl
4.2k
0
votes
1
reply
1.7k
views
News:
OrgDbs in AnnotationHub
annotationhub
orgdb
News
7.9 years ago
shepherl
4.2k
0
votes
0
replies
1.7k
views
News:
OrgDb and TxDb packages have been added to AnnotationHub for Bioc 3.6
orgdb
txdb
bioconductor
annotation
annotationhub
News
8.0 years ago
shepherl
4.2k
0
votes
2
replies
1.1k
views
Trouble loading Roadmap data from AnnotationHub
annotationhub
updated 8.0 years ago by
shepherl
4.2k • written 8.0 years ago by
bletteb18
• 0
1
vote
0
replies
1.5k
views
Error: failed to load resource reason: invalid class GRanges object: seqnames(x) contains missing values for newer GRCh38 annotations
AnnotationHub
8.0 years ago
marcel.schilling
▴ 10
0
votes
2
replies
1.2k
views
AnnotationHub downloading dataset fail
annotationhub
download_error
updated 8.1 years ago by
James W. MacDonald
68k • written 8.1 years ago by
vitay.dora
• 0
4
votes
10
replies
1.7k
views
Suggestion: spinning wheel for AnnotationHub
annotationhub
updated 8.1 years ago by
shepherl
4.2k • written 8.2 years ago by
Michael Love
43k
0
votes
1
reply
1.8k
views
querying annotation hub for common TF, in common cell line returns no results....
annotate
annotationhub
updated 8.1 years ago by
shepherl
4.2k • written 8.1 years ago by
chrisclarkson100
▴ 50
1
vote
0
replies
1.5k
views
News:
ensembl 90 ensembldb EnsDb databases have been added to AnnotationHub
ensemblb
ensembl
AnnotationHub
annotation
News
8.1 years ago
Johannes Rainer
★ 2.1k
1
vote
0
replies
1.1k
views
News:
ensembl 90 gtfs and fasta twobits have been added to AnnotationHub
annotationhub
bioconductor
News
updated 8.1 years ago by
Martin Morgan
25k • written 8.1 years ago by
shepherl
4.2k
0
votes
6
replies
2.1k
views
Why are important organisms missing from AnnotationHub. Example query(hub, "Zea")
orgdb
annotationhub
8.2 years ago
slbai01
• 0
0
votes
2
replies
1.4k
views
AnnotationHub not working
annotation
AnnotationHub
written 8.2 years ago by
genprabir106
• 0
1
vote
0
replies
1.5k
views
News:
complete set of OrgDb packages have been added to AnnotationHub
bioconductor
annotationhub
orgdb
News
8.3 years ago
shepherl
4.2k
2
votes
0
replies
1.1k
views
News:
ensembl 89 gtfs and fasta twobits have been added to AnnotationHub
bioconductor
annotationhub
ensembl89
News
8.4 years ago
shepherl
4.2k
0
votes
0
replies
1.0k
views
News:
ensembl 87 and 88 gtfs and fasta twobits have been added to AnnotationHub
bioconductor
annotationhub
News
8.4 years ago
shepherl
4.2k
2
votes
6
replies
1.9k
views
R getting "stuck" with RoadMap resource retrieval through AnnotationHub
roadmap project
annotationhub
8.4 years ago
vanesa_1230
• 0
8
votes
4
replies
5.3k
views
Tutorial:
Epigenomics RoadMap Project files now accessible via AnnotationHub
AnnotationHub
Epigenomics
BigData
RoadMap Project
NIH
Tutorial
updated 8.4 years ago by
vanesa_1230
• 0 • written 10.4 years ago by
Sonali Arora
▴ 390
2
votes
12
replies
3.2k
views
AnnotationHub-cant extract database
annotationhub
updated 8.5 years ago by
Valerie Obenchain
★ 6.8k • written 8.5 years ago by
ecpierce
• 0
1
vote
3
replies
2.5k
views
annotation of SV (Structural Variants)
variantannotation
annotationhub
8.5 years ago
Bogdan
▴ 670
0
votes
14
replies
6.2k
views
Easy way to turn OrgDb object from AnnotationHub into package?
AnnotationHub
AnnotationDbi
AnnotationForge
pathview
8.7 years ago • updated 3.1 years ago
Jenny Drnevich
★ 2.0k
1
vote
7
replies
1.8k
views
mismatch between AnnotationHub ensembl v71 hsapiens and direct download using rtracklayer
annotationhub
updated 8.7 years ago by
Valerie Obenchain
★ 6.8k • written 8.7 years ago by
mviterson
▴ 10
1
vote
6
replies
3.0k
views
Problem with AnnotationHub()
annotationhub
updated 8.8 years ago by
Valerie Obenchain
★ 6.8k • written 8.8 years ago by
rex.burger
▴ 10
0
votes
3
replies
1.5k
views
"quiet" mode for AnnotationHub?
AnnotationHub
8.8 years ago
Robert K. Bradley
▴ 40
5
votes
11
replies
3.7k
views
Certificate problem with ExperimentHub / AnnotationHub
software error
curatedmetagenomicdata
annotationhub
experimenthub
updated 8.8 years ago by
Levi Waldron
★ 1.1k • written 8.8 years ago by
morganx
▴ 10
5
votes
2
replies
1.7k
views
AnnotationHub: two broad peaks from same url are not the same
annotationhub
bugs
encode
bed
8.9 years ago • updated 8.8 years ago
wcstcyx
▴ 30
0
votes
2
replies
2.5k
views
bad restore file magic number with AnnotationHub
annotationhub
updated 8.8 years ago by
Valerie Obenchain
★ 6.8k • written 8.9 years ago by
jason.serviss
• 0
0
votes
1
reply
2.1k
views
Additions to AnnotationHub (for example, CpG islands for hg38 and mm10)
annotationhub
updated 8.9 years ago by
Valerie Obenchain
★ 6.8k • written 8.9 years ago by
rcavalca
▴ 140
3
votes
2
replies
2.1k
views
AnnotationHub: A RPKM data.frame of Epigenomics RoadMap Project seems strange
annotationhub
roadmap project
rpkm
data.frame
9.0 years ago
wcstcyx
▴ 30
0
votes
4
replies
1.5k
views
error with downloading AnnotationHub item AH134
AnnotationHub
updated 9.0 years ago by
Valerie Obenchain
★ 6.8k • written 9.0 years ago by
Robert K. Bradley
▴ 40
2
votes
3
replies
1.8k
views
Why No Uniprot information for some other organisms in AnnotationHub?
hub
annotationhub
updated 4.7 years ago by
shepherl
4.2k • written 9.1 years ago by
wssdandan2009
• 0
0
votes
3
replies
1.9k
views
AnnotationHub's NCBI OrgDB have older EGSOURCEDATE than org.Xy.eg.db?
AnnotationHub
updated 9.1 years ago by
Valerie Obenchain
★ 6.8k • written 9.1 years ago by
Jenny Drnevich
★ 2.0k
4
votes
7
replies
2.3k
views
AnnotationHub and ExperimentHub make "~" directory in my home
annotationhub
experimenthub
updated 9.1 years ago by
Valerie Obenchain
★ 6.8k • written 9.1 years ago by
Michael Love
43k
130 results • Page
2 of 3
Recent ...
Replies
Comment: Help with defining groups
by
Phinney, Brett
▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness
by
massimo
• 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package
by
ksankaran
• 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?
by
ATpoint
★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes
by
ATpoint
★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
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