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customProDB
•
reset
3
votes
8
replies
1.9k
views
Create protein sequences including variants from a VCF file
VariantAnnotation
customProDB
4.1 years ago
daniel.magnus.bader
▴ 40
2
votes
4
replies
1.4k
views
customProDB: error aberrant fasta from indels
indel
customprodb
fasta
variantannotation
updated 7.7 years ago by
xiaojing.wang
▴ 50 • written 7.7 years ago by
kristenbeck527
• 0
0
votes
3
replies
1.3k
views
calculateRPKM error in customProDB
software error
customprodb
updated 16 months ago by
Anne
• 0 • written 5.7 years ago by
javamng
▴ 10
2
votes
2
replies
1.3k
views
customProDB: issues getting dbSNP data for human (hg19)
customprodb
dbsnp
refseq
varianttools
updated 7.7 years ago by
xiaojing.wang
▴ 50 • written 7.7 years ago by
kristenbeck527
• 0
2
votes
4
replies
1.3k
views
customProDB: issues getting dbSNP data for non-model organism
ensembl
macaque
dbsnp
customprodb
updated 7.7 years ago by
xiaojing.wang
▴ 50 • written 7.7 years ago by
kristenbeck527
• 0
1
vote
1
reply
1.1k
views
error with calculateRPKM in customProDB
customProDB
software error
updated 16 months ago by
Anne
• 0 • written 5.7 years ago by
javamng
▴ 10
0
votes
0
replies
860
views
PrepareAnnotationRefseq2 function error!
PGA
customprodb
6.6 years ago
yeh234
• 0
0
votes
1
reply
808
views
customProDB, OutputVarproseq function update (snvproseq)
customprodb
updated 6.3 years ago by
xiaojing.wang
▴ 50 • written 6.3 years ago by
georges.bedran
• 0
0
votes
1
reply
793
views
Pull request for customProDB package
customProDB
featurerequest
updated 6.9 years ago by
Dan Tenenbaum
★ 8.2k • written 6.9 years ago by
matt.chambers42
▴ 10
0
votes
1
reply
786
views
CustomproDB JunctionType function
customprodb
updated 6.7 years ago by
xiaojing.wang
▴ 50 • written 6.7 years ago by
georges.bedran
• 0
0
votes
1
reply
631
views
aaVariation function bug (Methonine instead of Leucine)
customprodb
translation
updated 4.6 years ago by
xiaojing.wang
▴ 50 • written 5.0 years ago by
georges.bedran
• 0
0
votes
0
replies
629
views
Annotation package generation error for customprodb for hg38
customprodb
5.1 years ago
arunima2
• 0
0
votes
1
reply
594
views
customProDB: "complex" SNV scenarios handling
customprodb
updated 4.6 years ago by
xiaojing.wang
▴ 50 • written 4.6 years ago by
iranmdl15
• 0
0
votes
1
reply
591
views
Error with PrepareAnnotationRefseq: "tablenametotrack2: UCSC table "refGene" is not supported"
customProDB
updated 4.6 years ago by
xiaojing.wang
▴ 50 • written 4.8 years ago by
samupatt
• 0
0
votes
1
reply
494
views
customProDB: function PrepareAnnotationEnsembl() not working (biomart issue?)
customProDB
Ensembl connection
biomart
3.4 years ago
laura.fancello
• 0
0
votes
1
reply
449
views
CustomProDB InputVcf() - Issue getting the GRanges INDEL object from VCF file
vcf
snv
gatk
customprodb
inputvcf
3.7 years ago
Elena.M
• 0
0
votes
0
replies
240
views
How to get the chrominfo from ENSEMBL? (biomaRt and customProDB)
biomaRt
customProDB
8 months ago
04.marshal-decibel
• 0
0
votes
0
replies
162
views
CustomProDB: specify a snp dataset to be used for the SNP annotation
customProDB
7 months ago
04.marshal-decibel
• 0
0
votes
0
replies
71
views
customProDB: error aberrant fasta from SNV
customProDB
8 weeks ago
finoa.li
• 0
19 results • Page
1 of 1
Recent ...
Replies
Comment: How to combine two DESeq2 objects (dds) for analysis
by
ATpoint
★ 2.4k
Please get used to use dedicated setter and getter functions rather than accessing slots manually. The structure of a data object might cha…
Comment: How to combine two DESeq2 objects (dds) for analysis
by
TzuChiao
▴ 10
Hello Luke, Since DESeq2 takes raw counts, and provided that you only have the DESeq objects, you can extract raw counts with ```r count_…
Comment: deseq2 normalized counts as an input to deseq2
by
yomani.sarathkumara
• 0
Hi Michael, I have a similar question regarding the normalization of my RNAseq data. I used VSN normalization on pre-filtered data as f…
Comment: Annotated dendogram (tree) from tbl_graph
by
christian.dina
• 0
Thx, actually I have started reading it and think at some point I'll get it. However, I was looking for something that would not need me …
Comment: pathview: Warning: Failed to download KEGG xml/png files, hsa04110 skipped!
by
덕윤
• 0
Really appreciate your help :) At last, I can fix my problem. I have learned to check my code.
Votes
Comment: How to combine two DESeq2 objects (dds) for analysis
Comment: How to combine two DESeq2 objects (dds) for analysis
How many parameters should be included in the model design for deseq2?
Answer: Failed to install Biobase
Answer: Latest version of ggtree (3.6.2) unavailable on Anaconda. Only 3.6.0 exists.
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