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customProDB
•
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0
votes
1
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199
views
customProDB easyrun error in generating a custom protein database: Error in keepSeqlevels(anno, seqlevels(galn), pruning.mode = "coarse")
customProDB
3 months ago
Esraa
• 0
0
votes
1
reply
242
views
Calculate RPKMs and Output proteins pass the cutoff into FASTA file ... Error in keepSeqlevels(anno, seqlevels(galn), pruning.mode = "coarse") : i…
customProDB
easyrun
error
mm10
Mus_musculus_Data
updated 4 months ago by
James W. MacDonald
63k • written 4 months ago by
Esraa
• 0
0
votes
0
replies
169
views
customProDB: error aberrant fasta from SNV
customProDB
8 months ago
finoa.li
• 0
0
votes
0
replies
298
views
CustomProDB: specify a snp dataset to be used for the SNP annotation
customProDB
14 months ago
04.marshal-decibel
• 0
0
votes
0
replies
511
views
How to get the chrominfo from ENSEMBL? (biomaRt and customProDB)
biomaRt
customProDB
15 months ago
04.marshal-decibel
• 0
0
votes
1
reply
605
views
customProDB: function PrepareAnnotationEnsembl() not working (biomart issue?)
customProDB
Ensembl connection
biomart
3.9 years ago
laura.fancello
• 0
0
votes
1
reply
591
views
CustomProDB InputVcf() - Issue getting the GRanges INDEL object from VCF file
vcf
snv
gatk
customprodb
inputvcf
4.2 years ago
Elena.M
• 0
3
votes
8
replies
2.5k
views
Create protein sequences including variants from a VCF file
VariantAnnotation
customProDB
4.6 years ago
daniel.magnus.bader
▴ 40
0
votes
1
reply
743
views
customProDB: "complex" SNV scenarios handling
customprodb
updated 5.1 years ago by
xiaojing.wang
▴ 50 • written 5.1 years ago by
iranmdl15
• 0
0
votes
1
reply
766
views
Error with PrepareAnnotationRefseq: "tablenametotrack2: UCSC table "refGene" is not supported"
customProDB
updated 5.2 years ago by
xiaojing.wang
▴ 50 • written 5.3 years ago by
samupatt
• 0
0
votes
1
reply
778
views
aaVariation function bug (Methonine instead of Leucine)
customprodb
translation
updated 5.2 years ago by
xiaojing.wang
▴ 50 • written 5.5 years ago by
georges.bedran
• 0
0
votes
3
replies
1.5k
views
calculateRPKM error in customProDB
software error
customprodb
updated 22 months ago by
Anne
• 0 • written 6.2 years ago by
javamng
▴ 10
0
votes
0
replies
766
views
Annotation package generation error for customprodb for hg38
customprodb
5.7 years ago
arunima2
• 0
1
vote
1
reply
1.3k
views
error with calculateRPKM in customProDB
customProDB
software error
updated 22 months ago by
Anne
• 0 • written 6.2 years ago by
javamng
▴ 10
0
votes
1
reply
917
views
customProDB, OutputVarproseq function update (snvproseq)
customprodb
updated 6.8 years ago by
xiaojing.wang
▴ 50 • written 6.8 years ago by
georges.bedran
• 0
0
votes
0
replies
963
views
PrepareAnnotationRefseq2 function error!
PGA
customprodb
7.1 years ago
yeh234
• 0
0
votes
1
reply
903
views
CustomproDB JunctionType function
customprodb
updated 7.3 years ago by
xiaojing.wang
▴ 50 • written 7.3 years ago by
georges.bedran
• 0
0
votes
1
reply
911
views
Pull request for customProDB package
customProDB
featurerequest
updated 7.4 years ago by
Dan Tenenbaum
★ 8.2k • written 7.4 years ago by
matt.chambers42
▴ 10
2
votes
4
replies
1.6k
views
customProDB: error aberrant fasta from indels
indel
customprodb
fasta
variantannotation
updated 8.2 years ago by
xiaojing.wang
▴ 50 • written 8.2 years ago by
kristenbeck527
• 0
2
votes
2
replies
1.4k
views
customProDB: issues getting dbSNP data for human (hg19)
customprodb
dbsnp
refseq
varianttools
updated 8.2 years ago by
xiaojing.wang
▴ 50 • written 8.2 years ago by
kristenbeck527
• 0
2
votes
4
replies
1.5k
views
customProDB: issues getting dbSNP data for non-model organism
ensembl
macaque
dbsnp
customprodb
updated 8.2 years ago by
xiaojing.wang
▴ 50 • written 8.2 years ago by
kristenbeck527
• 0
21 results • Page
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Replies
Comment: tximport error: vroom
by
Benji Bromberg
• 0
Of course! Let me know if you figure it out.
Comment: tximport error: vroom
by
RLiu
▴ 10
Thank you for providing this clue. I never installed vroom manually. I guess it is one of dependences for tximport that automatically insta…
Comment: tximport error: vroom
by
RLiu
▴ 10
I checked that all `quant.sf`s have the same line number (42013 lines in each file), which is different from tx2gene (81493 lines).
Comment: tximport error: vroom
by
Benji Bromberg
• 0
I also ran into this same issue today. All my quant.sf files are the same length, were generated within the last month, [do not contain com…
Answer: DiffBind returns different grey lists every time I run dba.blacklist even if I s
by
James W. MacDonald
63k
Using `.set.seed` only sets the seed for the first call to any random number generation, after which the seed is incremented. As an example…
Votes
tximport error: vroom
Comment: Speeding up of DelayedArray::write_block()
Comment: Speeding up of DelayedArray::write_block()
Unclear of calculating correlations with case+control samples together
Answer: Error MakeOrgPackagefromNCBI
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