Showing : tcgabiolinks • reset
1
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2
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461
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How to install packages such as TCGAbiolinks, SumarizedExperiment?
TCGAbiolinks SummarizedExperiment
written 8 weeks ago by • 0
1
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1
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1.5k
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Differential expression analysis using two TCGA datasets
DifferentialExpression TCGAbiolinks RNASeq
updated 10 months ago by ★ 5.0k • written 10 months ago by • 0
1
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2
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1.9k
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Error in retrieving clinical data
TCGAbiolinks
12 months ago • updated 11 months ago silickas • 0
0
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1
reply
781
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combining raw counts and estimated counts
RNASeqData GEO TCGAbiolinks
updated 14 months ago by • 0 • written 14 months ago by • 0
0
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7
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2.0k
views
How should I know which platforms are available for TCGA methylation?
TCGAbiolinks
updated 16 months ago by 68k • written 16 months ago by • 0
3
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3
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4.5k
views
maftools: Error in validateMaf(maf = maf, isTCGA = isTCGA, rdup = removeDuplicatedVariants, : missing required fields from MAF: Chromosome
software error maftools tcgabiolinks
updated 23 months ago by ▴ 200 • written 8.4 years ago by ▴ 100
0
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0
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659
views
TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
24 months ago • updated 23 months ago Giovanni Calice ▴ 160
0
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0
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1.7k
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GDC slides download
TCGAbiolinks
2.0 years ago jain72744 • 0
0
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4
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1.7k
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I need to calculate the survival rate of TCGA databases
TCGAbiolinks Survival
updated 2.0 years ago by ▴ 760 • written 2.0 years ago by • 0
0
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0
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742
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champ.load() from .idat files of GDC/TCGA dataset
TCGAbiolinks ChAMP
2.1 years ago Thalita • 0
0
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1
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1.8k
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Problems when running GDC_prepare in R
TCGAbiolinks error GDC_prepare
2.3 years ago leon • 0
0
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0
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786
views
Where/how are TCGAbiolinks colData column names sourced from?
clinical TCGAbiolinks
2.6 years ago BioInfoBeginnerrr • 0
4
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8
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2.3k
views
TCGAbiolinks cannot find bcr_patient_barcode
TCGAbiolinks
2.8 years ago • updated 2.7 years ago Habil Zare ▴ 200
0
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2
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1.9k
views
RPPA data (Proteomics analysis)
TCGAbiolinks limma
2.9 years ago • updated 2.8 years ago qiz218591 • 0
1
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1
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1.4k
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Error when running getGDCprojects()
TCGAbiolinks
3.0 years ago DevelopingHippo • 0
2
votes
1
reply
1.6k
views
How to identify the batch informations from the sample ID?
TCGAbiolinks BatchQC BatchEffect
updated 2.5 years ago by • 0 • written 3.0 years ago by ▴ 200
0
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0
replies
1.4k
views
KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
Survival TCGAbiolinks R PAAD
3.0 years ago Manav • 0
1
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2
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2.9k
views
Error when running GDC_prepare
TCGAbiolinks
3.0 years ago DevelopingHippo • 0
1
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3
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1.8k
views
Some discrepancy between ED genes in cBioPortal vs DESeq2
DESeq2 TCGAbiolinks
3.1 years ago Alexandre • 0
0
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0
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910
views
TCGAbiolinks GDCprepare produces error in vectbl_as_col_location()
TCGAbiolinks
3.3 years ago lescano ▴ 10
0
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0
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1.2k
views
Query on TCGA
TCGAbiolinks TCGAWorkflow
3.5 years ago hemangininaik09 • 0
0
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2
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3.1k
views
Error with TCGA package - TCGAbiolinks
TCGAbiolinks RNASeq CancerData
updated 3.5 years ago by ▴ 270 • written 3.7 years ago by • 0
0
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0
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1.5k
views
About normalization of the datasets from Harmonized TCGA data
TCGAbiolinks Proteomics GENOMICS bioinformatics
3.6 years ago qiz218591 • 0
0
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0
replies
1.2k
views
TCGAbiolinks file.type argument
TCGAbiolinks
3.6 years ago Elizabeth • 0
0
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0
replies
953
views
Merging two SummarizedExperiment dataesets after downloading using TCGAbiolinks
TCGAbiolinks TCGAbiolinksGUI.data SummarizedExperiment
3.7 years ago syednajeebashraf • 0
5
votes
4
replies
5.8k
views
HTSeq Counts no longer available
TCGAbiolinks
updated 3.8 years ago by ★ 1.4k • written 3.9 years ago by ▴ 30
0
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4
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2.0k
views
GDCdownload Directory Problem :(
TCGAWorkflowData TCGAbiolinks
updated 2.0 years ago by 700 • written 3.8 years ago by • 0
0
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2
replies
2.9k
views
GDCprepare error in TARGET-AML data access
TCGAbiolinks TARGET-AML
updated 3.8 years ago by ▴ 270 • written 3.9 years ago by • 0
0
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1
reply
2.6k
views
GDCprepare of STAR - counts
GeneExpression TCGAbiolinks
updated 3.5 years ago by • 0 • written 3.9 years ago by • 0
3
votes
2
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4.3k
views
Difference in TCGA RNAseq expression values between GDC harmonized and legacy data
GDC TCGA tcgabiolinks
updated 3.9 years ago by • 0 • written 7.3 years ago by ▴ 10
4
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5
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2.5k
views
GDCprepare() can never complete request ("Error: cannot allocate vector")
TCGAbiolinks TCGA
updated 3.9 years ago by • 0 • written 5.5 years ago by ▴ 40
0
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0
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1.4k
views
GDCquery error when querying mutect2 data
TCGAbiolinks
3.9 years ago komal.rathi ▴ 120
0
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2
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3.0k
views
GDCprepare() - R Session Aborted
TCGAbiolinks R GDCprepare()
3.9 years ago • updated 3.4 years ago spyrouglykeria • 0
6
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3
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4.2k
views
GDCprepare of RNAseq counts produces error
TCGAbiolinks
updated 3.9 years ago by • 0 • written 3.9 years ago by ▴ 10
2
votes
8
replies
6.9k
views
GDCquery_Maf error
TCGAbiolinks GDCquery_Maf
updated 3.6 years ago by • 0 • written 3.9 years ago by • 0
0
votes
1
reply
1.7k
views
Compare TCGA-PAAD with GTEx gene expression
TCGAbiolinks
updated 12 months ago by • 0 • written 4.2 years ago by • 0
0
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0
replies
1.3k
views
TCGAAnalyze_DEA Issue, "Error in names"
miRNAseq TCGAbiolinks TCGAAnalyze_DEA
4.3 years ago Gandino • 0
0
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1
reply
3.2k
views
How to remove duplicate files per case in TCGAbiolonks
TCGAbiolinks
4.3 years ago raf4 ▴ 30
1
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2
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2.3k
views
Difficulty dowloading hg38 cnv data in tcgabiolinks
TCGAbiolinks cnv
4.4 years ago • updated 4.3 years ago raf4 ▴ 30
0
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1
reply
2.2k
views
pre-proccessing of TCGA data for WGCNA
TCGAbiolinks WGCNA
updated 4.5 years ago by 43k • written 4.5 years ago by • 0
0
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0
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1.2k
views
DEGs for legacy and harmonized dataset
#DEGs #legacydataset #harmonizeddataset TCGAbiolinks
updated 4.6 years ago by ★ 4.0k • written 4.6 years ago by • 0
0
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1
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1.9k
views
Help With TCGAbiolinks package
TCGAbiolinks data normalize l
updated 4.6 years ago by ★ 4.0k • written 4.6 years ago by • 0
0
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2
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2.0k
views
TCGA data Query (GDCquery): external_gene_name " are missing
TCGAbiolinks
4.7 years ago H. Z. Amini ▴ 10
0
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0
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3.1k
views
TCGA-BRCA downloading issue by GDCquery
TCGAbiolinks TCGAWorkflowData
4.7 years ago H. Z. Amini ▴ 10
0
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0
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1.3k
views
Determine whether RNAseq data from TCGA is paired or single-end?
TCGA TCGAbiolinks
4.8 years ago rebeliscu • 0
0
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3
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1.6k
views
discrepancy in number of samples
TCGAquery_recount2 TCGAbiolinks
4.9 years ago xiaofeiwang18266 ▴ 60
1
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1
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2.1k
views
Does DESeq2 need "scale_counts" for GTEx and TCGA data from recount2 (TCGAquery_recount2)?
TCGAbiolinks RECOUNT2 DESeq2
updated 4.9 years ago by 43k • written 4.9 years ago by ▴ 60
3
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8
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4.9k
views
error reading from connection (Error in load(url(con)))
TCGAbiolinks
4.9 years ago xiaofeiwang18266 ▴ 60
0
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0
replies
1.3k
views
Job: Postdoc in computational cancer biology at IEO, Milan, Italy
TCGAbiolinks BiomedicalInformatics Network
4.9 years ago martin.schaefer • 0
0
votes
1
reply
1.3k
views
library(TCGAbiolinks)
TCGAbiolinks
updated 5.1 years ago by ★ 4.0k • written 5.1 years ago by • 0
166 results • Page 1 of 4
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Answer: bcftools norm Equivalent by a2a2hd42aa • 0
it lacks a direct, single function equivalent to bcftools norm for variant normalization. Bioinformaticians often bridge this gap by using …
Answer: Inconsistencies between accessor functions for TxDb databases with selected seql by a2a2hd42aa • 0
Technical inconsistencies in database accessors can disrupt your workflow, but finding a reliable source to download online mobile games sh…
Comment: Can sample-level weights be used when analysing GSVA scores in limma? by A.Barden ▴ 20
Thanks both for this useful information.
Comment: Reproducibility of code in various Bioconductor versions by Gordon Smyth 53k
SNPlocs.Hsapiens.dbSNP155.GRCh38 is available for download from the same location as always. It has not changed since Bioc 3.20: Presumabl…
Comment: Changing multiple display parameters of a specific exon in GeneRegionTrack by a2a2hd42aa • 0
Similarly, for structural complexity in the [He777 Game][1] APK, having precise control over every detail is what makes a high-performance …
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Do I map probes to gene symbols BEFORE or AFTER differentially expressed gene analysis?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Comment: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Issue loading and downloading Bioconductor 3.22 packages after update
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