aroma-affymetrix  

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• • [aroma.affymetrix] Re: No write permissions error Elsa Chacko
  • Re: [aroma.affymetrix] Re: No write permissions error Henrik Bengtsson
• [aroma.affymetrix] aroma.affymetrix v1.8.0 released Henrik Bengtsson
• [aroma.affymetrix] MOUSEDIVm520650 and CRMAv2 Hans-Ulrich
  • Re: [aroma.affymetrix] MOUSEDIVm520650 and CRMAv2 Henrik Bengtsson
  • [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Hans-Ulrich
  • Re: [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Henrik Bengtsson
  • Re: [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Henrik Bengtsson
  • [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Hans-Ulrich
  • Re: [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Henrik Bengtsson
  • [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Hans-Ulrich
  • Re: [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Henrik Bengtsson
  • [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Hans-Ulrich
  • Re: [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Henrik Bengtsson
  • [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Hans-Ulrich
  • [aroma.affymetrix] Re: MOUSEDIVm520650 and CRMAv2 Irsan Kooi
• [aroma.affymetrix] How to cite CRMA v2 Henrik Bengtsson
• [aroma.affymetrix] ACNE for matched pairs Oscar Rueda
  • Re: [aroma.affymetrix] ACNE for matched pairs Henrik Bengtsson
  • Re: [aroma.affymetrix] ACNE for matched pairs Oscar Rueda
  • Re: [aroma.affymetrix] ACNE for matched pairs Henrik Bengtsson
  • Re: [aroma.affymetrix] ACNE for matched pairs Oscar Rueda
  • Re: [aroma.affymetrix] ACNE for matched pairs Henrik Bengtsson
  • [aroma.affymetrix] ACNE for matched pairs Oscar Rueda
• [aroma.affymetrix] Installing FIRMAGene Jon Tang
  • Re: [aroma.affymetrix] Installing FIRMAGene Mark Robinson
• [aroma.affymetrix] Missing file "bpmapCluster2Cdf.R" in "Create a CDF from a BpMap" vegard
  • RE: [aroma.affymetrix] Missing file "bpmapCluster2Cdf.R" in "Create a CDF from a BpMap" Steven McKinney
  • Re: [aroma.affymetrix] Missing file "bpmapCluster2Cdf.R" in "Create a CDF from a BpMap" Mark Robinson
• [aroma.affymetrix] Exception: None of the data directories exist allab
  • Re: [aroma.affymetrix] Exception: None of the data directories exist Henrik Bengtsson
• [aroma.affymetrix] Can aroma.affymertix handle the data of agilent chip? Yue Hu
  • Re: [aroma.affymetrix] Can aroma.affymertix handle the data of agilent chip? Henrik Bengtsson
• [aroma.affymetrix] Trying to create a CDF file from an R package/environment problems Fong
  • [aroma.affymetrix] Re: Trying to create a CDF file from an R package/environment problems Fong
  • Re: [aroma.affymetrix] Re: Trying to create a CDF file from an R package/environment problems Henrik Bengtsson
• [aroma.affymetrix] Parameters Sent To DNAcopy Functions Dario Strbenac
  • Re: [aroma.affymetrix] Parameters Sent To DNAcopy Functions Henrik Bengtsson
  • Re: [aroma.affymetrix] Parameters Sent To DNAcopy Functions Dario Strbenac
  • Re: [aroma.affymetrix] Parameters Sent To DNAcopy Functions Henrik Bengtsson
• [aroma.affymetrix] Problem with read CDF files Wero
  • Re: [aroma.affymetrix] Problem with read CDF files Dario Strbenac
  • Re: [aroma.affymetrix] Problem with read CDF files Pierre Neuvial
• [aroma.affymetrix] CbsModel parameters Kai
  • Re: [aroma.affymetrix] CbsModel parameters Henrik Bengtsson
  • [aroma.affymetrix] Re: CbsModel parameters Kai
  • Re: [aroma.affymetrix] Re: CbsModel parameters Henrik Bengtsson
  • Re: [aroma.affymetrix] Re: CbsModel parameters Henrik Bengtsson
  • [aroma.affymetrix] Re: CbsModel parameters Kai
  • Re: [aroma.affymetrix] Re: CbsModel parameters Henrik Bengtsson
  • Re: [aroma.affymetrix] Re: CbsModel parameters Venkatraman Seshan
  • Re: [aroma.affymetrix] Re: CbsModel parameters mbaudis
  • Re: [aroma.affymetrix] Re: CbsModel parameters Henrik Bengtsson
  • Re: [aroma.affymetrix] Re: CbsModel parameters mbaudis
• [aroma.affymetrix] Multiple NUSE and RLE Plots? Vonn
  • Re: [aroma.affymetrix] Multiple NUSE and RLE Plots? Henrik Bengtsson
• [aroma.affymetrix] Why are there duplicate positions for chromosome 14 on the Affy 6.0 array? Matt
  • Re: [aroma.affymetrix] Why are there duplicate positions for chromosome 14 on the Affy 6.0 array? Henrik Bengtsson
• [aroma.affymetrix] Help needed regarding GCRMA normalization of exon arrays using aroma.affymetrix..... Prithish Banerjee
  • [aroma.affymetrix] Help needed regarding GCRMA normalization of exon arrays using aroma.affymetrix..... Prithish Banerjee
  • Re: [aroma.affymetrix] Help needed regarding GCRMA normalization of exon arrays using aroma.affymetrix..... Henrik Bengtsson
  • Re: [aroma.affymetrix] Help needed regarding GCRMA normalization of exon arrays using aroma.affymetrix..... Prithish Banerjee
  • Re: [aroma.affymetrix] Help needed regarding GCRMA normalization of exon arrays using aroma.affymetrix..... Henrik Bengtsson
  • Re: [aroma.affymetrix] Help needed regarding GCRMA normalization of exon arrays using aroma.affymetrix..... Henrik Bengtsson
  • Re: [aroma.affymetrix] Help needed regarding GCRMA normalization of exon arrays using aroma.affymetrix..... Henrik Bengtsson
• [aroma.affymetrix] Relative Copy Number Analysis Dario Strbenac
  • Re: [aroma.affymetrix] Relative Copy Number Analysis Henrik Bengtsson
• [aroma.affymetrix] Alternatives way to access the mailing list archive Henrik Bengtsson
  • [aroma.affymetrix] Re: Alternatives way to access the mailing list archive Henrik Bengtsson
  • Re: [aroma.affymetrix] Re: Alternatives way to access the mailing list archive Laurent Gatto
• [aroma.affymetrix] Exception: Cannot fit normalization function to enzyme, because there are no (finite) data points that are unique to this enzyme: 1 Leif Schauser
  • Re: [aroma.affymetrix] Exception: Cannot fit normalization function to enzyme, because there are no (finite) data points that are unique to this enzyme: 1 Henrik Bengtsson
• [aroma.affymetrix] How long should it take to run CRMAv2 on 270 samples for Affymetrix SNP 6.0 arrays Matt
  • Re: [aroma.affymetrix] How long should it take to run CRMAv2 on 270 samples for Affymetrix SNP 6.0 arrays Henrik Bengtsson
• [aroma.affymetrix] CbsModel Kai
  • Re: [aroma.affymetrix] CbsModel Henrik Bengtsson
  • [aroma.affymetrix] Re: CbsModel Kai
  • Re: [aroma.affymetrix] Re: CbsModel Henrik Bengtsson
• [aroma.affymetrix] unusual copy number analysis result - split copy numbers Patrick
  • Re: [aroma.affymetrix] unusual copy number analysis result - split copy numbers Henrik Bengtsson
  • Re: [aroma.affymetrix] unusual copy number analysis result - split copy numbers Henrik Bengtsson
  • Re: [aroma.affymetrix] unusual copy number analysis result - split copy numbers Henrik Bengtsson
• [aroma.affymetrix] GLAD not producing output Gene
  • Re: [aroma.affymetrix] GLAD not producing output Pierre Neuvial
  • Re: [aroma.affymetrix] GLAD not producing output Henrik Bengtsson
  • [aroma.affymetrix] Re: GLAD not producing output Gene
• [aroma.affymetrix] MSCN and ChromosomeExplorer Kai
  • Re: [aroma.affymetrix] MSCN and ChromosomeExplorer Henrik Bengtsson
• [aroma.affymetrix] Problems extracting intensity values after normalization Vonn
  • Re: [aroma.affymetrix] Problems extracting intensity values after normalization Henrik Bengtsson
  • Re: [aroma.affymetrix] Problems extracting intensity values after normalization vwalter
  • Re: [aroma.affymetrix] Problems extracting intensity values after normalization Henrik Bengtsson
• [aroma.affymetrix] FIRMAGene: No write permission for directory: probeData/tissues,RBC/HuGene-1_0-st-v1 AlexChen
  • Re: [aroma.affymetrix] FIRMAGene: No write permission for directory: probeData/tissues,RBC/HuGene-1_0-st-v1 Henrik Bengtsson
  • Re: [aroma.affymetrix] FIRMAGene: No write permission for directory: probeData/tissues,RBC/HuGene-1_0-st-v1 chen chao
  • Re: [aroma.affymetrix] FIRMAGene: No write permission for directory: probeData/tissues,RBC/HuGene-1_0-st-v1 Henrik Bengtsson
  • Re: [aroma.affymetrix] FIRMAGene: No write permission for directory: probeData/tissues,RBC/HuGene-1_0-st-v1 chen chao
  • Re: [aroma.affymetrix] FIRMAGene: No write permission for directory: probeData/tissues,RBC/HuGene-1_0-st-v1 Henrik Bengtsson
• [aroma.affymetrix] Problems updating aroma.affymetrix Matt
  • Re: [aroma.affymetrix] Problems updating aroma.affymetrix Pierre Neuvial
  • Re: [aroma.affymetrix] Problems updating aroma.affymetrix Pierre Neuvial
  • Re: [aroma.affymetrix] Problems updating aroma.affymetrix Mark Robinson
  • Re: [aroma.affymetrix] Problems updating aroma.affymetrix Henrik Bengtsson
  • Re: [aroma.affymetrix] Problems updating aroma.affymetrix Matt
• [aroma.affymetrix] run FirmaGene on exon array ? Qicheng Ma
  • [aroma.affymetrix] Re: run FirmaGene on exon array ? Mark Robinson
  • [aroma.affymetrix] Re: run FirmaGene on exon array ? Qicheng Ma
  • [aroma.affymetrix] Re: run FirmaGene on exon array ? Mark Robinson
• [aroma.affymetrix] Custom Canine SNP (DogSty06m520431); problem with chr24-39 Denis
  • Re: [aroma.affymetrix] Custom Canine SNP (DogSty06m520431); problem with chr24-39 Henrik Bengtsson
  • [aroma.affymetrix] Re: Custom Canine SNP (DogSty06m520431); problem with chr24-39 Denis
  • [aroma.affymetrix] Re: Custom Canine SNP (DogSty06m520431); problem with chr24-39 Denis
  • Re: [aroma.affymetrix] Re: Custom Canine SNP (DogSty06m520431); problem with chr24-39 Henrik Bengtsson
• [aroma.affymetrix] Another "Exception: Cannot fit target function to enzyme" Gene
  • Re: [aroma.affymetrix] Another "Exception: Cannot fit target function to enzyme" Pierre Neuvial
  • [aroma.affymetrix] Re: Another "Exception: Cannot fit target function to enzyme" Gene
  • Re: [aroma.affymetrix] Re: Another "Exception: Cannot fit target function to enzyme" Henrik Bengtsson
  • [aroma.affymetrix] Re: Another "Exception: Cannot fit target function to enzyme" Gene
  • Re: [aroma.affymetrix] Re: Another "Exception: Cannot fit target function to enzyme" Henrik Bengtsson
  • [aroma.affymetrix] Re: Another "Exception: Cannot fit target function to enzyme" Gene
• [aroma.affymetrix] firmaGeneScores Pvalue (or Qvalue)? Qicheng Ma
  • [aroma.affymetrix] Re: firmaGeneScores Pvalue (or Qvalue)? Mark Robinson
• [aroma.affymetrix] Errors with getChipEffectSet(plm) Vonn
  • Re: [aroma.affymetrix] Errors with getChipEffectSet(plm) Henrik Bengtsson
• [aroma.affymetrix] sorry, I can not reproduce the table 2 in FIRMAGene paper qichengm
  • [aroma.affymetrix] Re: sorry, I can not reproduce the table 2 in FIRMAGene paper Mark Robinson
• [aroma.affymetrix] Re: Help with custom CDF file for Mouse Exon Array and FIRMA package Elizabeth Purdom
• [aroma.affymetrix] Cannot fit normalization function to enzyme, because there are no (finite) data points that are unique to this enzyme: 1 gouxiongpapa
  • Re: [aroma.affymetrix] Cannot fit normalization function to enzyme, because there are no (finite) data points that are unique to this enzyme: 1 Pierre Neuvial
• [aroma.affymetrix] Error need help(CdfFile$byChipType) vish
  • Re: [aroma.affymetrix] Error need help(CdfFile$byChipType) Pierre Neuvial
  • Re: [aroma.affymetrix] Error need help(CdfFile$byChipType) ashwin Vishnuvardhana
  • Re: [aroma.affymetrix] Error need help(CdfFile$byChipType) Henrik Bengtsson
  • Re: [aroma.affymetrix] Error need help(CdfFile$byChipType) ashwin Vishnuvardhana
  • Re: [aroma.affymetrix] Error need help(CdfFile$byChipType) ashwin Vishnuvardhana
  • Re: [aroma.affymetrix] Error need help(CdfFile$byChipType) Henrik Bengtsson
  • Re: [aroma.affymetrix] Error need help(CdfFile$byChipType) ashwin Vishnuvardhana
• [aroma.affymetrix] non finite values in FIRMA results Adi Tarca
  • Re: [aroma.affymetrix] non finite values in FIRMA results Henrik Bengtsson
  • [aroma.affymetrix] Re: non finite values in FIRMA results Adi Tarca
  • Re: [aroma.affymetrix] Re: non finite values in FIRMA results Mark Robinson
  • [aroma.affymetrix] Re: non finite values in FIRMA results Adi Tarca
• [aroma.affymetrix] aroma.affymetrix v1.7.0 released Henrik Bengtsson
• [aroma.affymetrix] Mo-Ex 1.0st array Analysis using aroma.affymetrix and FIRMA model Sundar
  • [aroma.affymetrix] Re: Mo-Ex 1.0st array Analysis using aroma.affymetrix and FIRMA model Sundar
  • Re: [aroma.affymetrix] Re: Mo-Ex 1.0st array Analysis using aroma.affymetrix and FIRMA model Henrik Bengtsson
  • Re: [aroma.affymetrix] Re: Mo-Ex 1.0st array Analysis using aroma.affymetrix and FIRMA model Mark Robinson
• [aroma.affymetrix] medpolish in analyzing HuGene arrays Steven Bosinger
  • Re: [aroma.affymetrix] medpolish in analyzing HuGene arrays Henrik Bengtsson
• [aroma.affymetrix] Batch Adjusted RMA data Fong
  • Re: [aroma.affymetrix] Batch Adjusted RMA data Henrik Bengtsson
• [aroma.affymetrix] peculiar array quality Matt Wilkerson
  • Re: [aroma.affymetrix] peculiar array quality Henrik Bengtsson
  • [aroma.affymetrix] Re: peculiar array quality Henrik Bengtsson
• [aroma.affymetrix] Firma Scores in the range of 700-1500 gaurav bhatti
  • Re: [aroma.affymetrix] Firma Scores in the range of 700-1500 Mark Robinson
• [aroma.affymetrix] writeDataFrame in CRMAv2 and ACNE Nicolas Vergne
  • Re: [aroma.affymetrix] writeDataFrame in CRMAv2 and ACNE Henrik Bengtsson
  • Re: [aroma.affymetrix] writeDataFrame in CRMAv2 and ACNE Henrik Bengtsson
  • Re: [aroma.affymetrix] writeDataFrame in CRMAv2 and ACNE Henrik Bengtsson
• [aroma.affymetrix] Reference dataset for ACNE Nicolas Vergne
  • Re: [aroma.affymetrix] Reference dataset for ACNE Henrik Bengtsson
  • Re: [aroma.affymetrix] Reference dataset for ACNE Henrik Bengtsson
  • [aroma.affymetrix] Re: Reference dataset for ACNE Henrik Bengtsson
  • [aroma.affymetrix] Re: Reference dataset for ACNE Henrik Bengtsson
• [aroma.affymetrix] IGNORE: Mail test #1 Henrik Bengtsson
• Re: Exporting summarized signals to be used by Affymetrix GTC? (Was: Re: [aroma.affymetrix] Re: CRMA v2 errors) Henrik Bengtsson
  • Re: Exporting summarized signals to be used by Affymetrix GTC? (Was: Re: [aroma.affymetrix] Re: CRMA v2 errors) Henrik Bengtsson
• [aroma.affymetrix] Analysis of GenomeWideSNP6.0 data Ajanthah Sangaralingam
  • Re: [aroma.affymetrix] Analysis of GenomeWideSNP6.0 data Henrik Bengtsson
  • RE: [aroma.affymetrix] Analysis of GenomeWideSNP6.0 data Ajanthah Sangaralingam
  • Re: [aroma.affymetrix] Analysis of GenomeWideSNP6.0 data Ajanthah Sangaralingam
  • Re: [aroma.affymetrix] Analysis of GenomeWideSNP6.0 data Pierre Neuvial
  • Re: [aroma.affymetrix] Analysis of GenomeWideSNP6.0 data Ajanthah Sangaralingam
  • Re: [aroma.affymetrix] Analysis of GenomeWideSNP6.0 data Henrik Bengtsson
• [aroma.affymetrix] Problem with extracting subset of samples for 500K biobee
  • Re: [aroma.affymetrix] Problem with extracting subset of samples for 500K Henrik Bengtsson
  • Re: [aroma.affymetrix] Problem with extracting subset of samples for 500K Henrik Bengtsson
• [aroma.affymetrix] attach two data frames Liang Cheng
  • Re: [aroma.affymetrix] attach two data frames Pierre Neuvial
• [aroma.affymetrix] problem with CDF file Zsuzsa
  • Re: [aroma.affymetrix] problem with CDF file Henrik Bengtsson
• [aroma.affymetrix] Aroma Affymetrix package update problem Fong
  • Re: [aroma.affymetrix] Aroma Affymetrix package update problem Pierre Neuvial
• [aroma.affymetrix] HuEx Transcript Annotation with biomaRt Rashid, Mamunur
• [aroma.affymetrix] ArrayExplorer issue larryns
  • [aroma.affymetrix] Re: ArrayExplorer issue larryns
  • Re: [aroma.affymetrix] Re: ArrayExplorer issue Henrik Bengtsson
• Re: Where can I download the CDF file? (Was: Re: [aroma.affymetrix] problem with Arguments$getInstanceOf(dataSet, "SnpChipEffectSet")) Henrik Bengtsson
• Re: How to figure out the chip type of unknown CEL files (Was: Re: [aroma.affymetrix] problem with Arguments$getInstanceOf(dataSet, "SnpChipEffectSet")) Henrik Bengtsson
• [aroma.affymetrix] uncomplete extractDataFrame() EmilieT
  • Re: [aroma.affymetrix] uncomplete extractDataFrame() Pierre Neuvial
  • Re: [aroma.affymetrix] uncomplete extractDataFrame() Pierre Neuvial
  • Re: [aroma.affymetrix] uncomplete extractDataFrame() Pierre Neuvial
• [aroma.affymetrix] Error in using the extract() function Johan Staaf
  • Re: [aroma.affymetrix] Error in using the extract() function Henrik Bengtsson
• [aroma.affymetrix] Microsoft Visual C++ Runtime Library Liang Cheng
  • Re: [aroma.affymetrix] Microsoft Visual C++ Runtime Library Pierre Neuvial
  • Re: [aroma.affymetrix] Microsoft Visual C++ Runtime Library Liang Cheng
  • Re: [aroma.affymetrix] Microsoft Visual C++ Runtime Library Pierre Neuvial

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