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questions
2
votes
3
replies
542
views
6 follow
How to summarize the expression of a gene when having expression data from different transcripts of that gene
rnaseq
expression
updated 9 months ago by
i.sudbery
18k • written 9 months ago by
jeni
▴ 90
0
votes
0
replies
304
views
SNV occuring 2 fold more in forward than in reverse reads should be filtered?
VariantCalling
22 months ago by
jeni
▴ 90
11
votes
5
replies
6.3k
views
Remove supplementary alignments from a bam file
alignment
updated 2.7 years ago by
cianagalis
• 0 • written 3.6 years ago by
jeni
▴ 90
0
votes
1
reply
570
views
How to statistically determine if a mutation has an impact on expression individually for one patient
RNA-Seq
variant calling
2.9 years ago by
jeni
▴ 90
0
votes
3
replies
600
views
Correct number of detected variants by coverage
variant calling
3.0 years ago by
jeni
▴ 90
0
votes
3
replies
907
views
Differencial expression analysis between groups determined by two variables
expression
microarray
clustering
3.2 years ago by
jeni
▴ 90
3
votes
6
replies
1.5k
views
Does it make sense to transform expression data to zscore after performing RMA?
microarray
expression
updated 19 months ago by
kountaydwivedi
• 0 • written 3.2 years ago by
jeni
▴ 90
0
votes
0
replies
634
views
Is it right to use a low amount of bumphunter permutations?
methylation
microarray
DMR
3.2 years ago by
jeni
▴ 90
0
votes
0
replies
522
views
How to deal with SNPs and INDELs called in hypermutated regions?
variant calling
3.3 years ago by
jeni
▴ 90
0
votes
0
replies
548
views
Where to find a list of hypermutated regions for hg19 assembly?
variant calling
3.4 years ago by
jeni
▴ 90
2
votes
1
reply
881
views
How to know which genes are favouring or inactivating a pathway in a gene set enrichment analysis
enrichment analysis
updated 3.4 years ago by
Papyrus
★ 2.7k • written 3.4 years ago by
jeni
▴ 90
0
votes
0
replies
956
views
Reduce GRanges by different lengths of overlapping, deppending on each compared intervals
GRanges
3.5 years ago by
jeni
▴ 90
1
vote
3
replies
2.6k
views
HOMER hg19 not found in config.txt
HOMER
motif
finding
updated 2.3 years ago by
Sarah
• 0 • written 3.5 years ago by
jeni
▴ 90
3
votes
9
replies
1.2k
views
Best practice to find regulatory motifs in a set of sequences
regulatory
motif
finding
updated 3.5 years ago by
Mensur Dlakic
★ 25k • written 3.5 years ago by
jeni
▴ 90
3
votes
3
replies
1.1k
views
Best way to call differencially methylated positions taking into account results from both Beta and M values
methylation
updated 3.5 years ago by
Papyrus
★ 2.7k • written 3.5 years ago by
jeni
▴ 90
2
votes
5
replies
1.2k
views
VEP is returning MOTIF_NAME values not recognised by Ensembl
snp
Ensembl
VEP
updated 3.5 years ago by
Michal @Ensembl
▴ 270 • written 3.5 years ago by
jeni
▴ 90
0
votes
0
replies
674
views
Download all positions where a motif exist from the genome browser
genome
3.5 years ago by
jeni
▴ 90
0
votes
6
replies
651
views
Pathways analysis taking into account the number of times a gene is present among several patients
snp
3.6 years ago by
jeni
▴ 90
2
votes
2
replies
1.2k
views
Read genotype information with VariantAnnotation
SNP
R
vcf
Bioconductor
VariantAnnotation
updated 3.6 years ago by
benformatics
3.8k • written 3.6 years ago by
jeni
▴ 90
0
votes
2
replies
838
views
filter_vep not properly filtering
snp
updated 3.6 years ago by
Ram
41k • written 3.6 years ago by
jeni
▴ 90
5
votes
6
replies
3.0k
views
Parse VEP VCF with variantAnnotation
snp
R
3.6 years ago by
jeni
▴ 90
1
vote
4
replies
1.4k
views
Is it right to combine multiple runs downloaded from SRA?
next-gen
3.6 years ago by
jeni
▴ 90
0
votes
4
replies
588
views
How to remove reads supporting the same fragment that other reads support
Assembly
genome
3.7 years ago by
jeni
▴ 90
2
votes
6
replies
2.6k
views
Extract reads with insert size 0 from a bam file
alignment
updated 3.7 years ago by
Friederike
8.9k • written 3.7 years ago by
jeni
▴ 90
0
votes
5
replies
853
views
Transform genomic intervals to genomic positions in an R dataframe
R
3.7 years ago by
jeni
▴ 90
0
votes
1
reply
707
views
Plot per base coverage from regions coverage with R
R
updated 3.7 years ago by
lakhujanivijay
5.8k • written 3.7 years ago by
jeni
▴ 90
0
votes
2
replies
1.1k
views
Minfi preprocessNoob vs preprocessQuantile normalization for Illumina EPIC array
R
Minfi
bioconductor
updated 4.0 years ago by
zx8754
11k • written 4.0 years ago by
jeni
▴ 90
0
votes
0
replies
825
views
Get IlluminaHumanMethylationEPICmanifest.bpm file
R
Bioconductor
updated 4.0 years ago by
zx8754
11k • written 4.0 years ago by
jeni
▴ 90
0
votes
0
replies
644
views
Get probe names from HTAFeatureSet expression data
R
4.0 years ago by
jeni
▴ 90
29 results • Page
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