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408
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How to generate table_annovar from VCF input?
vcf annovar
updated 4 months ago by 163k • written 4 months ago by ▴ 70
2
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1
reply
350
views
Failed to open VCF file
GATK sentieon BWA-MEM
updated 4 months ago by 163k • written 4 months ago by ▴ 70
0
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0
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342
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Combine MAF, GISTIC, and clinical data using maftools
mutation TCGAbiolinks maftools TCGA
9 months ago by melissachua90 ▴ 70
0
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1
reply
631
views
Comment: Comment: Appropriate genome reference for converting TCGA VCF files to MAF
10 months ago by melissachua90 ▴ 70
0
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3
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631
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Appropriate genome reference for converting TCGA VCF files to MAF
maf vcf vcf2maf TCGA
updated 10 months ago by ★ 1.2k • written 10 months ago by ▴ 70
0
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1
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1.3k
views
Comment: Comment: Retrieving single-cell dataset from GEO database
13 months ago by melissachua90 ▴ 70
1
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4
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1.3k
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Retrieving single-cell dataset from GEO database
seurat GEO r single-cell
updated 13 months ago by 44k • written 13 months ago by ▴ 70
0
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0
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804
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Comment: Comment: Limma differential expression analysis across subtypes
15 months ago by melissachua90 ▴ 70
0
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2
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804
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Limma differential expression analysis across subtypes
differential-expression limma
15 months ago by melissachua90 ▴ 70
0
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0
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3.2k
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Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
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0
replies
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
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0
replies
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
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1
reply
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
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2
replies
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
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1
reply
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
votes
1
reply
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
4
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21
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3.2k
views
Limma returned only positive logFC values
edgeR differential-expression deg limma
15 months ago by melissachua90 ▴ 70
0
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0
replies
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
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1
reply
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
votes
0
replies
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
votes
1
reply
3.2k
views
Comment: Comment: Limma returned only positive logFC values
15 months ago by melissachua90 ▴ 70
0
votes
1
reply
544
views
How to determine the optimal number of clusters?
clustering clusters
updated 19 months ago by 11k • written 19 months ago by ▴ 70
0
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0
replies
386
views
Correlation matrix for mutation vs other omics types
TCGA multi-omics mutation omics maftools
20 months ago by melissachua90 ▴ 70
0
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0
replies
390
views
How to find TCGA samples with multiple chromosomal gains?
mutation tcga maftools
20 months ago by melissachua90 ▴ 70
1
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2
replies
838
views
How to replace Gene Symbols with Ensembl ID?
r biomart
updated 22 months ago by ▴ 360 • written 22 months ago by ▴ 70
0
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0
replies
451
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GSEApy
gsea gseapy
23 months ago by melissachua90 ▴ 70
0
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1
reply
717
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Comment: Comment: "EpiMutation"
23 months ago by melissachua90 ▴ 70
1
vote
3
replies
717
views
"EpiMutation"
mutation TCGA epigenetics
updated 23 months ago by 4.3k • written 23 months ago by ▴ 70
0
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0
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412
views
GDCprepare truncated when downloading TCGA methylation data
GDCquery GDCprepare R TCGA
23 months ago by melissachua90 ▴ 70
0
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0
replies
479
views
Unable to run cisTarget (pySCENIC)
pySCENIC
23 months ago by melissachua90 ▴ 70
1
vote
1
reply
1.2k
views
Create the design matrix for limma differential expression analysis.
gene differential expression dge limma
updated 24 months ago by ★ 7.3k • written 24 months ago by ▴ 70
1
vote
0
replies
560
views
Visualization of networks inferred using GrnBoost2 on bulk mRNA expression data
python inference network visualization GrnBoost2
24 months ago by melissachua90 ▴ 70
4
votes
4
replies
1.5k
views
Forum: Bioinformatics analogies
Bioinformatics
updated 2.0 years ago by 101k • written 2.0 years ago by ▴ 70
0
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2
replies
1.0k
views
Retrieve transcription factors from gene set using biomaRt
factors R transcription biomaRt
updated 2.1 years ago by ▴ 60 • written 2.1 years ago by ▴ 70
0
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1
reply
9.9k
views
Comment: Comment: How to deal with `'select()' returned 1:many mapping between keys and columns` w
2.1 years ago by melissachua90 ▴ 70
0
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0
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9.9k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
2.1 years ago by melissachua90 ▴ 70
0
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1
reply
9.9k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
2.1 years ago by melissachua90 ▴ 70
0
votes
1
reply
9.9k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
2.1 years ago by melissachua90 ▴ 70
0
votes
1
reply
9.9k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
2.1 years ago by melissachua90 ▴ 70
0
votes
1
reply
9.9k
views
Comment: Comment: How to retrieve Entrez IDs using Gene Symbols in R?
2.1 years ago by melissachua90 ▴ 70
0
votes
13
replies
9.9k
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 2.1 years ago by 4.3k • written 2.1 years ago by ▴ 70
0
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0
replies
484
views
PyGNA
PyGNA network analysis geneset
2.1 years ago by melissachua90 ▴ 70
0
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0
replies
1.0k
views
Comment: Comment: How to normalize microarray data using Python?
2.1 years ago by melissachua90 ▴ 70
0
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2
replies
1.0k
views
How to normalize microarray data using Python?
normalization Affymetrix microarray
2.1 years ago by melissachua90 ▴ 70
0
votes
0
replies
453
views
What type of plots is suitable for time-dependent treatment on gene expression for each patient?
time-series plot visualization plotly
2.1 years ago by melissachua90 ▴ 70
0
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0
replies
420
views
How to subset specific genes from microarray dataset using Python?
time-series affymetrix pandas microarray
2.2 years ago by melissachua90 ▴ 70
0
votes
0
replies
729
views
CNV annotation using GAIA
cnv gaia
2.2 years ago by melissachua90 ▴ 70
0
votes
0
replies
445
views
scRNA-seq filtering thresholds
filtering scRNA-seq
2.3 years ago by melissachua90 ▴ 70
0
votes
2
replies
1.2k
views
Interpret stacked violin plots
visualization sequencing plot violin single-cell data
updated 2.3 years ago by ★ 1.8k • written 2.3 years ago by ▴ 70
0
votes
0
replies
439
views
How to find clinical information from cBioPortal?
cbioportal TCGA
2.4 years ago by melissachua90 ▴ 70
137 results • Page 1 of 3
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