Showing : customprodb • reset
2
votes
4
replies
1.9k
views
customProDB: issues getting dbSNP data for non-model organism
ensembl macaque dbsnp customprodb
updated 9.5 years ago by ▴ 50 • written 9.5 years ago by • 0
2
votes
2
replies
1.9k
views
customProDB: issues getting dbSNP data for human (hg19)
customprodb dbsnp refseq varianttools
updated 9.5 years ago by ▴ 50 • written 9.5 years ago by • 0
2
votes
4
replies
2.1k
views
customProDB: error aberrant fasta from indels
indel customprodb fasta variantannotation
updated 9.5 years ago by ▴ 50 • written 9.5 years ago by • 0
0
votes
1
reply
1.3k
views
Pull request for customProDB package
customProDB featurerequest
updated 8.7 years ago by ★ 8.2k • written 8.7 years ago by ▴ 10
0
votes
1
reply
1.3k
views
CustomproDB JunctionType function
customprodb
updated 8.6 years ago by ▴ 50 • written 8.6 years ago by • 0
0
votes
1
reply
1.2k
views
customProDB, OutputVarproseq function update (snvproseq)
customprodb
updated 8.1 years ago by ▴ 50 • written 8.1 years ago by • 0
0
votes
3
replies
1.9k
views
calculateRPKM error in customProDB
software error customprodb
updated 3.1 years ago by • 0 • written 7.5 years ago by ▴ 10
0
votes
1
reply
1.1k
views
aaVariation function bug (Methonine instead of Leucine)
customprodb translation
updated 6.5 years ago by ▴ 50 • written 6.8 years ago by • 0
0
votes
1
reply
1.1k
views
Error with PrepareAnnotationRefseq: "tablenametotrack2: UCSC table "refGene" is not supported"
customProDB
updated 6.5 years ago by ▴ 50 • written 6.6 years ago by • 0
0
votes
1
reply
1.1k
views
customProDB: "complex" SNV scenarios handling
customprodb
updated 6.4 years ago by ▴ 50 • written 6.4 years ago by • 0
4
votes
9
replies
3.8k
views
Create protein sequences including variants from a VCF file
VariantAnnotation customProDB
updated 8 months ago by • 0 • written 5.9 years ago by ▴ 50
0
votes
1
reply
929
views
customProDB: function PrepareAnnotationEnsembl() not working (biomart issue?)
customProDB Ensembl connection biomart
5.2 years ago laura.fancello • 0
0
votes
0
replies
633
views
CustomProDB: specify a snp dataset to be used for the SNP annotation
customProDB
2.5 years ago 04.marshal-decibel • 0
0
votes
1
reply
695
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 20 months ago by 67k • written 20 months ago by • 0
0
votes
0
replies
1.3k
views
PrepareAnnotationRefseq2 function error!
PGA customprodb
8.4 years ago yeh234 • 0
0
votes
1
reply
1.0k
views
CustomProDB InputVcf() - Issue getting the GRanges INDEL object from VCF file
vcf snv gatk customprodb inputvcf
5.5 years ago Elena.M • 0
0
votes
0
replies
1.0k
views
How to get the chrominfo from ENSEMBL? (biomaRt and customProDB)
biomaRt customProDB
2.5 years ago 04.marshal-decibel • 0
1
vote
1
reply
1.6k
views
error with calculateRPKM in customProDB
customProDB software error
updated 3.1 years ago by • 0 • written 7.5 years ago by ▴ 10
0
votes
0
replies
1.1k
views
Annotation package generation error for customprodb for hg38
customprodb
7.0 years ago arunima2 • 0
0
votes
0
replies
429
views
customProDB: error aberrant fasta from SNV
customProDB
24 months ago finoa.li • 0
0
votes
1
reply
696
views
customProDB easyrun error in generating a custom protein database: Error in keepSeqlevels(anno, seqlevels(galn), pruning.mode = "coarse")
customProDB
19 months ago Esraa • 0
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Comment: How to sort negative log2FC or FC in RNAseq for GSEA? by QN ▴ 10
Thank you ATpoint for your response! In the result of GSEA, like you indicated, there will be gene sets that have positive NES and gene se…
Comment: EdgeR Biological CVs by ATpoint ★ 4.6k
"Joseph" is a spam bot...
Comment: Problems with oarfish + tximport + swish by Im • 0
Office ta kemon
Answer: How to sort negative log2FC or FC in RNAseq for GSEA? by ATpoint ★ 4.6k
GSEA asks whether there are general shifts in gene expression towards certain terms. Hence, you would not split your results tables but ord…
Comment: EdgeR Biological CVs by James • 0
Thank you Gordon and Joseph. I presume question (1) would be answered by using a prior G0 of 0? For question (2), I was expecting a biolog…
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How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.
Answer: EdgeR Biological CVs
Comment: EdgeR Biological CVs
Answer: Error in download.file for TCGAutils::symbolsToRanges
Answer: Error in download.file for TCGAutils::symbolsToRanges
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