Showing : BioMart • reset
5
votes
4
replies
9.6k
views
Getting rs ids using chr coordinates | Biomart
SNP rs id Biomart Chromosome coordinates
updated 9 months ago by 65k • written 3.7 years ago by • 0
3
votes
3
replies
9.2k
views
How to find rsID with biomaRt in R
biomaRt
updated 10 weeks ago by 65k • written 3.1 years ago by ▴ 10
22
votes
15
replies
7.3k
views
biomaRt error unable to fix: need help troubleshooting
biomaRt RNASeqData R
updated 5 months ago by ▴ 10 • written 2.0 years ago by ▴ 50
7
votes
5
replies
6.8k
views
biomaRt server error, and mirrors do not help
ensembl biomaRt R
updated 6 months ago by • 0 • written 23 months ago by ▴ 40
10
votes
10
replies
6.4k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 28 days ago by • 0 • written 5 months ago by ▴ 10
1
vote
7
replies
4.3k
views
Problems Installing biomaRt
biomaRt
updated 5 months ago by 65k • written 2.0 years ago by ▴ 20
7
votes
6
replies
4.0k
views
Conversion of UniProt to Ensembl
biomaRt ensembldb UniProt.ws
updated 6 months ago by 690 • written 20 months ago by ▴ 20
3
votes
4
replies
1.7k
views
biomaRt error: database disk image is malformed
biomaRt
updated 10 months ago by • 0 • written 2.5 years ago by • 0
0
votes
1
reply
1.4k
views
News: News:Ensembl 110 has been released
ensembldb biomaRt
updated 9 months ago by 41k • written 9 months ago by ▴ 30
0
votes
3
replies
1.3k
views
getLDS causes "biomaRt has encountered an unexpected server error"
biomaRt
written 12 months ago by ▴ 30
1
vote
4
replies
1.1k
views
Issue with Biomart- cannot access ensembl
biomaRT
updated 28 days ago by 65k • written 4.0 years ago by • 0
3
votes
2
replies
1.0k
views
ERROR in EnrichKEGG(), 'species should be listed' in, download method do not change
KEGG DESeq2 biomaRt clusterProfiler org.Mm.eg.db
updated 8 months ago by ★ 3.9k • written 8 months ago by ▴ 10
0
votes
3
replies
979
views
Problem installing biomaRt on mac
biomaRt mac
updated 8 months ago by ▴ 50 • written 17 months ago by • 0
0
votes
1
reply
940
views
How to get Cytogenetic band for muscles gene by using Biomart or other tools in R
Annotation biomaRt ensembldb
written 2.4 years ago by • 0
4
votes
12
replies
909
views
Ensembl down???
biomaRt
4 months ago bas_work ▴ 30
2
votes
4
replies
903
views
Use with_go along with other filters in getBM function
Annotation biomaRt
11 months ago • updated 10 months ago RuBBiT0 ▴ 10
0
votes
1
reply
789
views
multiple filters in biomaRt
biomaRt
updated 10 months ago by ▴ 10 • written 11 months ago by • 0
0
votes
10
replies
786
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
5 months ago • updated 6 weeks ago ScafioRuo • 0
1
vote
2
replies
766
views
Error: biomaRt has encountered an unexpected server error.
biomaRt
updated 10 months ago by ★ 6.5k • written 11 months ago by • 0
0
votes
3
replies
736
views
Error with makeTxDbFromBiomart
DEXSeq biomaRt
updated 8 months ago by 16k • written 8 months ago by • 0
0
votes
2
replies
688
views
biomart not ound some prevous release
biomart rnaseq
written 5.2 years ago by ▴ 40
6
votes
9
replies
688
views
biomaRt has encountered an unknown server error.
biomaRt host useEnsembl
updated 11 weeks ago by • 0 • written 11 weeks ago by • 0
0
votes
1
reply
640
views
biomaRt_getBM_Failed to collect lazy table
getBM biomaRt
updated 4 months ago by 65k • written 4 months ago by • 0
1
vote
4
replies
639
views
biomaRt code/getBM function no longer importing 'coding' sequence via seqType argument, "Invalid attribute(s): coding" error
biomaRt
6 months ago andrew.b.kleist ▴ 10
0
votes
1
reply
600
views
Trouble using biomaRt to pull pathway genes from GO
GO biomaRt
updated 9 months ago by 65k • written 9 months ago by • 0
2
votes
2
replies
591
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
3 months ago bd2000 ▴ 30
1
vote
2
replies
587
views
How to find stop codons for a list of genes
stopcodon biomaRt
4 months ago Marek Gierlinski ▴ 30
1
vote
2
replies
581
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
8 months ago Miguel • 0
1
vote
5
replies
581
views
Errors with makeTxDbFromBiomart
biomaRt
updated 8 months ago by 65k • written 8 months ago by ▴ 10
0
votes
3
replies
538
views
BioMart Error message when pulling sequences
biomaRt bioma
updated 12 months ago by ★ 6.5k • written 12 months ago by • 0
0
votes
3
replies
451
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 5 months ago by 50k • written 5 months ago by • 0
0
votes
2
replies
433
views
Issue with BiomaRt's getLDS: Query ERROR: caught BioMart::Exception::Query: returning undef ... missing attributes for your exportable
biomaRt
9 weeks ago eefernan5 • 0
3
votes
2
replies
397
views
biomaRtl returns multiple GO terms when filtering on a single GO term in ensembl database
ensembl biomaRt
4 months ago henrydionne ▴ 10
1
vote
5
replies
378
views
BiomaRt download data error
biomaRt
updated 10 weeks ago by ★ 6.5k • written 10 weeks ago by • 0
0
votes
2
replies
359
views
Problem with loading ensembl version 105.
biomaRt
3 months ago RC • 0
0
votes
0
replies
351
views
Getting CDS 5'/CDS3' incomplete flags info from ENSEMBL using biomaRt
biomaRt
8 months ago ali.oghabian • 0
0
votes
3
replies
350
views
Obtaining rsIDs with ENSG and variant ID information
rsid biomaRt
updated 4 months ago by ★ 3.2k • written 4 months ago by ▴ 30
0
votes
2
replies
347
views
Biomart - upstream region of 'coding'
biomaRt
updated 7 months ago by ★ 6.5k • written 7 months ago by ▴ 20
1
vote
1
reply
337
views
Error with biomaRt
biomaRt
updated 3 months ago by ★ 6.5k • written 3 months ago by • 0
4
votes
2
replies
333
views
Enrichement with clusterProfiler and biomart
biomaRt clusterProfiler Zea_mays
updated 3 months ago by ★ 3.9k • written 3 months ago by • 0
0
votes
1
reply
251
views
error in mapIds function
mapIds biomaRt
updated 7 weeks ago by 690 • written 7 weeks ago by • 0
1
vote
1
reply
205
views
502 error biomaRt getLDS()
ensembldb biomaRt
updated 9 weeks ago by • 0 • written 10 weeks ago by ▴ 10
0
votes
1
reply
201
views
biomaRt issue
biomaRt
updated 10 weeks ago by ★ 6.5k • written 10 weeks ago by • 0
1
vote
0
replies
176
views
News: Ensembl 111 has been released
Ensembl biomaRt
3 months ago Benjamin ▴ 30
0
votes
1
reply
111
views
Multiple affymatrix IDs mapping to a single gene name
biomaRt
updated 16 days ago by 65k • written 17 days ago by • 0
1
vote
2
replies
51
views
OrgDb for maize
clusterProfiler OrgDb biomaRt Zea_mays
updated 10 minutes ago by 65k • written 15 hours ago by • 0
46 results • Page 1 of 1
Recent ...
Replies
Answer: OrgDb for maize by James W. MacDonald 65k
``` > library(AnnotationHub) > hub <- AnnotationHub() |===========================| 100% snapshotDate(): 2023-10-23 > query(hu…
Comment: Which input file is used for DGEList in EgdeR? by i.atanasoai • 0
Understood, Thank you very much for the reply, very kind.
Comment: Which input file is used for DGEList in EgdeR? by Michael Love 41k
"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k
These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…
Comment: DEG with low counts by Michael Love 41k
These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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