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97
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How to generate table_annovar from VCF input?
vcf annovar
updated 2 hours ago by 161k • written 8 hours ago by ▴ 70
2
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1
reply
232
views
Failed to open VCF file
GATK sentieon BWA-MEM
updated 5 days ago by 161k • written 6 days ago by ▴ 70
0
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0
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257
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Combine MAF, GISTIC, and clinical data using maftools
mutation TCGAbiolinks maftools TCGA
5 months ago by melissachua90 ▴ 70
0
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1
reply
489
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Comment: Comment: Appropriate genome reference for converting TCGA VCF files to MAF
6 months ago by melissachua90 ▴ 70
0
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3
replies
489
views
Appropriate genome reference for converting TCGA VCF files to MAF
maf vcf vcf2maf TCGA
updated 6 months ago by ★ 1.2k • written 6 months ago by ▴ 70
0
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1
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1.0k
views
Comment: Comment: Retrieving single-cell dataset from GEO database
9 months ago by melissachua90 ▴ 70
1
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4
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1.0k
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Retrieving single-cell dataset from GEO database
seurat GEO r single-cell
updated 9 months ago by 43k • written 9 months ago by ▴ 70
0
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0
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693
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Comment: Comment: Limma differential expression analysis across subtypes
10 months ago by melissachua90 ▴ 70
0
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2
replies
693
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Limma differential expression analysis across subtypes
differential-expression limma
10 months ago by melissachua90 ▴ 70
0
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0
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2.7k
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Comment: Comment: Limma returned only positive logFC values
10 months ago by melissachua90 ▴ 70
0
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0
replies
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
0
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0
replies
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
0
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1
reply
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
0
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2
replies
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
0
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1
reply
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
0
votes
1
reply
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
4
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21
replies
2.7k
views
Limma returned only positive logFC values
edgeR differential-expression deg limma
10 months ago by melissachua90 ▴ 70
0
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0
replies
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
0
votes
1
reply
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
0
votes
0
replies
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
0
votes
1
reply
2.7k
views
Comment: Comment: Limma returned only positive logFC values
11 months ago by melissachua90 ▴ 70
0
votes
1
reply
464
views
How to determine the optimal number of clusters?
clustering clusters
updated 15 months ago by 11k • written 15 months ago by ▴ 70
0
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0
replies
328
views
Correlation matrix for mutation vs other omics types
TCGA multi-omics mutation omics maftools
16 months ago by melissachua90 ▴ 70
0
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0
replies
338
views
How to find TCGA samples with multiple chromosomal gains?
mutation tcga maftools
16 months ago by melissachua90 ▴ 70
1
vote
2
replies
755
views
How to replace Gene Symbols with Ensembl ID?
r biomart
updated 18 months ago by ▴ 360 • written 18 months ago by ▴ 70
0
votes
0
replies
394
views
GSEApy
gsea gseapy
19 months ago by melissachua90 ▴ 70
0
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1
reply
638
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Comment: Comment: "EpiMutation"
19 months ago by melissachua90 ▴ 70
1
vote
3
replies
638
views
"EpiMutation"
mutation TCGA epigenetics
updated 19 months ago by 3.9k • written 19 months ago by ▴ 70
0
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0
replies
365
views
GDCprepare truncated when downloading TCGA methylation data
GDCquery GDCprepare R TCGA
19 months ago by melissachua90 ▴ 70
0
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0
replies
421
views
Unable to run cisTarget (pySCENIC)
pySCENIC
19 months ago by melissachua90 ▴ 70
1
vote
1
reply
1.1k
views
Create the design matrix for limma differential expression analysis.
gene differential expression dge limma
updated 19 months ago by ★ 7.2k • written 19 months ago by ▴ 70
1
vote
0
replies
488
views
Visualization of networks inferred using GrnBoost2 on bulk mRNA expression data
python inference network visualization GrnBoost2
19 months ago by melissachua90 ▴ 70
4
votes
4
replies
1.4k
views
Forum: Bioinformatics analogies
Bioinformatics
updated 20 months ago by 100k • written 20 months ago by ▴ 70
0
votes
2
replies
873
views
Retrieve transcription factors from gene set using biomaRt
factors R transcription biomaRt
updated 21 months ago by ▴ 60 • written 21 months ago by ▴ 70
0
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1
reply
8.7k
views
Comment: Comment: How to deal with `'select()' returned 1:many mapping between keys and columns` w
21 months ago by melissachua90 ▴ 70
0
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0
replies
8.7k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
21 months ago by melissachua90 ▴ 70
0
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1
reply
8.7k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
21 months ago by melissachua90 ▴ 70
0
votes
1
reply
8.7k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
21 months ago by melissachua90 ▴ 70
0
votes
1
reply
8.7k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
21 months ago by melissachua90 ▴ 70
0
votes
1
reply
8.7k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
21 months ago by melissachua90 ▴ 70
0
votes
13
replies
8.7k
views
How to deal with `'select()' returned 1:many mapping between keys and columns` warning when retrieving Entrez IDs using Gene Symbols in R?
mapids R netgsa entrez
updated 21 months ago by 3.9k • written 21 months ago by ▴ 70
0
votes
0
replies
416
views
PyGNA
PyGNA network analysis geneset
21 months ago by melissachua90 ▴ 70
0
votes
0
replies
932
views
Comment: Comment: How to normalize microarray data using Python?
22 months ago by melissachua90 ▴ 70
0
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2
replies
932
views
How to normalize microarray data using Python?
normalization Affymetrix microarray
22 months ago by melissachua90 ▴ 70
0
votes
0
replies
394
views
What type of plots is suitable for time-dependent treatment on gene expression for each patient?
time-series plot visualization plotly
22 months ago by melissachua90 ▴ 70
0
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0
replies
370
views
How to subset specific genes from microarray dataset using Python?
time-series affymetrix pandas microarray
22 months ago by melissachua90 ▴ 70
0
votes
0
replies
649
views
CNV annotation using GAIA
cnv gaia
22 months ago by melissachua90 ▴ 70
0
votes
0
replies
382
views
scRNA-seq filtering thresholds
filtering scRNA-seq
24 months ago by melissachua90 ▴ 70
0
votes
2
replies
1.1k
views
Interpret stacked violin plots
visualization sequencing plot violin single-cell data
updated 24 months ago by ★ 1.8k • written 2.0 years ago by ▴ 70
0
votes
0
replies
384
views
How to find clinical information from cBioPortal?
cbioportal TCGA
2.0 years ago by melissachua90 ▴ 70
137 results • Page 1 of 3
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