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• 2012/08/22 Re: [galaxy-user] New reference genome in Bowtie Sarah Marcus
• 2012/08/22 Re: [galaxy-user] New reference genome in Bowtie Jennifer Jackson
• 2012/08/22 Re: [galaxy-user] file upload renamed Nate Coraor
• 2012/08/21 [galaxy-user] file upload renamed Neil.Burdett
• 2012/08/21 Re: [galaxy-user] FTP upload problem Fatih Ozsolak
• 2012/08/21 [galaxy-user] LimitInternalRecursion Adhemar
• 2012/08/21 Re: [galaxy-user] FTP upload problem Richard Mark White
• 2012/08/21 [galaxy-user] URL file upload... and file upload renamed Neil.Burdett
• 2012/08/21 [galaxy-user] How to upload multiple files...... Neil.Burdett
• 2012/08/21 [galaxy-user] New reference genome in Bowtie Sarah Marcus
• 2012/08/21 Re: [galaxy-user] run Bowtie to estimate Mean Inner Distance between Mate Pairs Du, Jianguang
• 2012/08/21 Re: [galaxy-user] Aggregate collections of files (example: Heatmaps) Peter Cock
• 2012/08/21 [galaxy-user] How to find the alternatively spliced segment of genes in Cuffdiff output Du, Jianguang
• 2012/08/21 Re: [galaxy-user] FTP upload problem Jennifer Jackson
• 2012/08/21 [galaxy-user] FTP upload problem Fatih Ozsolak
• 2012/08/21 Re: [galaxy-user] Files uploaded via FTP - 530 Sorry, the maximum number of clients (3) for this user are already connected. Jennifer Jackson
• 2012/08/21 [galaxy-user] Aggregate collections of files (example: Heatmaps) Ted Goldstein
• 2012/08/21 Re: [galaxy-user] run Bowtie to estimate Mean Inner Distance between Mate Pairs rsharris
• 2012/08/21 [galaxy-user] cuffdiff sample values assigned Jennifer Jackson
• 2012/08/21 [galaxy-user] Files uploaded via FTP - 530 Sorry, the maximum number of clients (3) for this user are already connected. Julie Rodor
• 2012/08/21 [galaxy-user] inconsistent cuffdiff i b
• 2012/08/21 Re: [galaxy-user] Counting intervals in one file overlapping intervals in another file - what are the hidden settings? Daniel Blankenberg
• 2012/08/21 [galaxy-user] tophat deletions output i b
• 2012/08/20 Re: [galaxy-user] Counting intervals in one file overlapping intervals in another file - what are the hidden settings? Alex Shaw
• 2012/08/20 Re: [galaxy-user] run Bowtie to estimate Mean Inner Distance between Mate Pairs Jennifer Jackson
• 2012/08/20 [galaxy-user] Table with gene count reads Jennifer Jackson
• 2012/08/20 Re: [galaxy-user] Minimum length of read segments Jennifer Jackson
• 2012/08/20 Re: [galaxy-user] Linking to Compressed Data Jennifer Jackson
• 2012/08/20 Re: [galaxy-user] From gff to gff3? Jennifer Jackson
• 2012/08/20 [galaxy-user] inconsistent cuffdiff output-corrected question i b
• 2012/08/20 [galaxy-user] inconsistent cuffdiff output i b
• 2012/08/19 Re: [galaxy-user] To access galaxy over the network Masaki MS
• 2012/08/19 [galaxy-user] From gff to gff3? Yan He
• 2012/08/17 Re: [galaxy-user] Galaxy-installed - Localhost Not opening Scott McManus
• 2012/08/17 Re: [galaxy-user] To access galaxy over the network Scott McManus
• 2012/08/17 Re: [galaxy-user] copy number variation detcetion in Glaxay Mathew Bunj
• 2012/08/17 [galaxy-user] Galaxy-installed - Localhost Not opening Lizex Husselmann
• 2012/08/17 [galaxy-user] To access galaxy over the network Masaki MS
• 2012/08/16 Re: [galaxy-user] cuffdiff sample values assigned Jennifer Jackson
• 2012/08/16 Re: [galaxy-user] Counting intervals in one file overlapping intervals in another file - what are the hidden settings? Jennifer Jackson
• 2012/08/16 Re: [galaxy-user] copy number variation detcetion in Glaxay Erik Garrison
• 2012/08/16 [galaxy-user] run Bowtie to estimate Mean Inner Distance between Mate Pairs Du, Jianguang
• 2012/08/16 [galaxy-user] Minimum length of read segments Du, Jianguang
• 2012/08/16 [galaxy-user] Counting intervals in one file overlapping intervals in another file - what are the hidden settings? Mohammad Heydarian
• 2012/08/16 Re: [galaxy-user] galaxy-user Digest, Vol 74, Issue 15 De Kumar, Bony
• 2012/08/16 Re: [galaxy-user] Use Own Junctions or not Jennifer Jackson
• 2012/08/16 Re: [galaxy-user] Do I need to allow indel search? Jennifer Jackson
• 2012/08/16 Re: [galaxy-user] Cuffdiff errors Jennifer Jackson
• 2012/08/16 Re: [galaxy-user] copy number variation detcetion in Glaxay Mathew Bunj
• 2012/08/16 [galaxy-user] Cuffdiff errors Yan He
• 2012/08/16 Re: [galaxy-user] copy number variation detcetion in Glaxay Jennifer Jackson
• 2012/08/15 [galaxy-user] Use Own Junctions or not Du, Jianguang
• 2012/08/15 [galaxy-user] Do I need to allow indel search? Du, Jianguang
• 2012/08/15 Re: [galaxy-user] Galaxy toolshed-vcftools Jennifer Jackson
• 2012/08/15 Re: [galaxy-user] Can I convert paired-end datasets into single end ones? Jennifer Jackson
• 2012/08/15 [galaxy-user] Can I convert paired-end datasets into single end ones? Du, Jianguang
• 2012/08/15 Re: [galaxy-user] How to decide "Mean Inner Distance between Mate Pairs"? Jennifer Jackson
• 2012/08/15 [galaxy-user] Linking to Compressed Data Branden Timm
• 2012/08/15 Re: [galaxy-user] Lift Over bam files Jennifer Jackson
• 2012/08/15 [galaxy-user] cuffdiff sample values assigned i b
• 2012/08/15 Re: [galaxy-user] How to decide "Mean Inner Distance between Mate Pairs"? Sean Davis
• 2012/08/15 [galaxy-user] How to decide "Mean Inner Distance between Mate Pairs"? Du, Jianguang
• 2012/08/15 [galaxy-user] Lift Over bam files Geert Vandeweyer
• 2012/08/15 [galaxy-user] copy number variation detcetion in Glaxay shamsher jagat
• 2012/08/15 Re: [galaxy-user] picard bam statistic Jennifer Jackson
• 2012/08/15 Re: [galaxy-user] 答复: how to sort mapped data? Jennifer Jackson
• 2012/08/14 [galaxy-user] 答复: how to sort mapped data? Yan He
• 2012/08/14 Re: [galaxy-user] how to sort mapped data? Jennifer Jackson
• 2012/08/14 Re: [galaxy-user] mapping reads to an shRNA library? Jennifer Jackson
• 2012/08/14 [galaxy-user] how to sort mapped data? Yan He
• 2012/08/14 Re: [galaxy-user] Map with Bowtie or Tophat? Jennifer Jackson
• 2012/08/14 Re: [galaxy-user] should I run FASTQ Groomer? Jennifer Jackson
• 2012/08/14 [galaxy-user] should I run FASTQ Groomer? Du, Jianguang
• 2012/08/14 Re: [galaxy-user] whixh setting should be used to upload mouse reference genome? Jennifer Jackson
• 2012/08/14 Re: [galaxy-user] which reference genome should I select Jennifer Jackson
• 2012/08/14 [galaxy-user] whixh setting should be used to upload mouse reference genome? Du, Jianguang
• 2012/08/14 [galaxy-user] which reference genome should I select Du, Jianguang
• 2012/08/14 [galaxy-user] Galaxy toolshed-vcftools Mahtab Mirmomeni
• 2012/08/13 Re: [galaxy-user] cuffcompare inputs Jennifer Jackson
• 2012/08/12 [galaxy-user] picard bam statistic i b
• 2012/08/12 [galaxy-user] mapping reads to an shRNA library? Suzie Hight
• 2012/08/11 [galaxy-user] Extreme parallelization for NGS analysis Josh Tietjen
• 2012/08/11 Re: [galaxy-user] cuffdiff with three groups i b
• 2012/08/11 [galaxy-user] cuffdiff with three groups i b
• 2012/08/11 [galaxy-user] Map with Bowtie or Tophat? i b
• 2012/08/10 Re: [galaxy-user] FTP upload problem Jennifer Jackson
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Edward Turk
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Hotz, Hans-Rudolf
• 2012/08/10 [galaxy-user] Extracting all CpG-SNPs from dbSNP135 Richard Henriksson
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Jennifer Jackson
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Ted Goldstein
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Jennifer Jackson
• 2012/08/10 [galaxy-user] need help to split paired-end dataset Du, Jianguang
• 2012/08/10 [galaxy-user] (no subject) Du, Jianguang
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Edward Turk
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Jennifer Jackson
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Jennifer Jackson
• 2012/08/10 Re: [galaxy-user] reference genome format for tophat Jennifer Jackson
• 2012/08/10 Re: [galaxy-user] Problem with running Cufflinks Jennifer Jackson
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Diana Cox-Foster
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Edward Turk
• 2012/08/10 Re: [galaxy-user] FASTQ splitter produced empty dataset, please help Jennifer Jackson
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Jennifer Jackson
• 2012/08/10 Re: [galaxy-user] Install Galaxy on Mac Edward Turk
• 2012/08/10 [galaxy-user] FASTQ splitter produced empty dataset, please help Du, Jianguang
• 2012/08/10 [galaxy-user] Install Galaxy on Mac Edward Turk
• 2012/08/10 [galaxy-user] reference genome format for tophat i b
• 2012/08/10 [galaxy-user] Problem with running Cufflinks Yan He
• 2012/08/10 [galaxy-user] cuffcompare inputs i b
• 2012/08/09 Re: [galaxy-user] how to split paired-end dataset of FASTQ format Bram Van den Bergh
• 2012/08/09 [galaxy-user] how to split paired-end dataset of FASTQ format Du, Jianguang
• 2012/08/09 Re: [galaxy-user] Streptococcus suis genome Jennifer Jackson
• 2012/08/09 Re: [galaxy-user] help for alternative splicing with RNA-seq analysis Jennifer Jackson
• 2012/08/09 [galaxy-user] help for alternative splicing with RNA-seq analysis Du, Jianguang
• 2012/08/09 Re: [galaxy-user] downloading a reference genome: Saccharomyces_cerevisiae_S288C_SGD2010 Jennifer Jackson
• 2012/08/09 [galaxy-user] Streptococcus suis genome Joerg Willenborg
• 2012/08/08 [galaxy-user] FTP upload problem Yan He
• 2012/08/08 [galaxy-user] downloading a reference genome: Saccharomyces_cerevisiae_S288C_SGD2010 Douda Bensasson
• 2012/08/08 Re: [galaxy-user] Bowtie mapping waiting to run for 3 days Jennifer Jackson
• 2012/08/08 [galaxy-user] Bowtie mapping waiting to run for 3 days Yanina Bogliotti
• 2012/08/08 Re: [galaxy-user] FTP down? Jennifer Jackson
• 2012/08/08 [galaxy-user] FTP down? John Clayton
• 2012/08/08 Re: [galaxy-user] rescuing files from local installation of Galaxy Jennifer Jackson
• 2012/08/08 [galaxy-user] rescuing files from local installation of Galaxy Amit Pande
• 2012/08/07 Re: [galaxy-user] Can I call SNPs and Indels in Galaxy Jennifer Jackson
• 2012/08/07 Re: [galaxy-user] Question about SICER out put shamsher jagat
• 2012/08/07 Re: [galaxy-user] Question about SICER out put Jennifer Jackson
• 2012/08/07 Re: [galaxy-user] How to extrapolate differentially expressed genes after running cuffdiff? Jennifer Jackson
• 2012/08/07 Re: [galaxy-user] reference genome uploading Jennifer Jackson
• 2012/08/07 Re: [galaxy-user] bcf to vcf Jennifer Jackson
• 2012/08/07 Re: [galaxy-user] Question about Unified genotyper Jennifer Jackson
• 2012/08/07 Re: [galaxy-user] Question about Unified genotyper Geraldine Van der Auwera
• 2012/08/07 Re: [galaxy-user] Job is waiting to run Jennifer Jackson
• 2012/08/07 Re: [galaxy-user] how to use user-defined reference? Jennifer Jackson
• 2012/08/07 Re: [galaxy-user] Question about Unified genotyper Carlos Borroto
• 2012/08/07 [galaxy-user] Job is waiting to run Yan He
• 2012/08/07 [galaxy-user] Fwd: Staring a Cloud Instance Mark Lindsay
• 2012/08/06 [galaxy-user] how to use user-defined reference? Yan He
• 2012/08/06 [galaxy-user] How to block anonymous access and disallow user registration‏ Joel Rosenberg
• 2012/08/06 Re: [galaxy-user] a question about cuffdiff "values" Jeremy Goecks
• 2012/08/06 [galaxy-user] a question about cuffdiff "values" Elwood Linney
• 2012/08/06 [galaxy-user] bcf to vcf shamsher jagat
• 2012/08/06 [galaxy-user] Question about Unified genotyper Mathew Bunj
• 2012/08/03 Re: [galaxy-user] pairwise alignments Jennifer Jackson
• 2012/08/03 Re: [galaxy-user] Help with Summary Statistics Peter Cock
• 2012/08/03 [galaxy-user] Local instance and storage space to provide Scott McManus
• 2012/08/03 [galaxy-user] Help with Summary Statistics D. A. Cowart
• 2012/08/03 [galaxy-user] pairwise alignments Alessandro testori
• 2012/08/02 [galaxy-user] Can I call SNPs and Indels in Galaxy Mathew Bunj
• 2012/08/02 [galaxy-user] Lost my history! Jean-Philippe Couture
• 2012/08/01 Re: [galaxy-user] Conservation (i.e. PhastCons) Q Jennifer Jackson
• 2012/08/01 [galaxy-user] Conservation (i.e. PhastCons) Q Vincent Joseph Lynch
• 2012/08/01 Re: [galaxy-user] Fwd: PBS Server Throwing Errors Scott McManus
• 2012/08/01 [galaxy-user] Fwd: [galaxy-dev] Local instance and storage space to provide Scott McManus
• 2012/08/01 [galaxy-user] Fwd: PBS Server Throwing Errors Scott McManus
• 2012/08/01 Re: [galaxy-user] Running Cufflinks on Bacterial RNAseq data Jennifer Jackson
• 2012/08/01 [galaxy-user] SNP analysis in Galaxy shamsher jagat
• 2012/08/01 Re: [galaxy-user] Running Cufflinks on Bacterial RNAseq data Peter Cock
• 2012/08/01 Re: [galaxy-user] Datasets permanently deleted Sarah Maman
• 2012/07/31 [galaxy-user] August 2012 Galaxy Update Dave Clements
• 2012/07/31 [galaxy-user] reference genome uploading i b
• 2012/07/31 Re: [galaxy-user] Job En-queued, but not running Jennifer Jackson
• 2012/07/31 Re: [galaxy-user] Running Cufflinks on Bacterial RNAseq data Jennifer Jackson
• 2012/07/31 Re: [galaxy-user] Datasets permanently deleted Jeremy Goecks
• 2012/07/31 [galaxy-user] Datasets permanently deleted Sarah Maman
• 2012/07/29 Re: [galaxy-user] galaxy wiki error Jennifer Jackson
• 2012/07/29 Re: [galaxy-user] tophat output spice junction output Jennifer Jackson
• 2012/07/29 [galaxy-user] How to extrapolate differentially expressed genes after running cuffdiff? i b
• 2012/07/29 Re: [galaxy-user] flaking regions across TSS Jennifer Jackson
• 2012/07/29 [galaxy-user] cuffdiff biological replicates i b
• 2012/07/28 Re: [galaxy-user] cuffdiff: same gene listed with different FPKM values Jennifer Jackson
• 2012/07/28 Re: [galaxy-user] gene or transcript differential expression testing Leonor Palmeira
• 2012/07/28 [galaxy-user] gene or transcript differential expression testing i b
• 2012/07/27 [galaxy-user] Job En-queued, but not running Vijaykant N
• 2012/07/27 Re: [galaxy-user] metagenomic workflow Judith van Bleijswijk
• 2012/07/27 [galaxy-user] Running Cufflinks on Bacterial RNAseq data Rachel Krasich
• 2012/07/26 Re: [galaxy-user] SAM Tools Pileup Jennifer Jackson
• 2012/07/26 [galaxy-user] cuffdiff: same gene listed with different FPKM values i b
• 2012/07/26 [galaxy-user] The GATK has a new website and forum Geraldine Van der Auwera
• 2012/07/26 [galaxy-user] All I want is a question answered please! Jennifer Jackson
• 2012/07/26 [galaxy-user] metagenomic workflow Asuncion Lago
• 2012/07/25 [galaxy-user] galaxy wiki error lufang0411
• 2012/07/25 Re: [galaxy-user] CloudMan - Can't start nodes mailing list
• 2012/07/25 Re: [galaxy-user] "Jobs is waiting to run" all day on Main Lu, Mengmeng
• 2012/07/25 Re: [galaxy-user] "Jobs is waiting to run" all day on Main Lu, Mengmeng
• 2012/07/25 [galaxy-user] SAM Tools Pileup So, Kathy GZ/US
• 2012/07/25 Re: [galaxy-user] CloudMan - Can't start nodes Brad Chapman
• 2012/07/25 Re: [galaxy-user] CloudMan - Can't start nodes mailing list
• 2012/07/24 Re: [galaxy-user] CloudMan - Can't start nodes Brad Chapman
• 2012/07/24 Re: [galaxy-user] "Jobs is waiting to run" all day on Main Jennifer Jackson
• 2012/07/24 Re: [galaxy-user] CloudMan - Can't start nodes mailing list
• 2012/07/23 Re: [galaxy-user] Uploading files into local instance! Please help! Jennifer Jackson
• 2012/07/23 [galaxy-user] Uploading files into local instance! Please help! Di Nguyen
• 2012/07/23 Re: [galaxy-user] CloudMan - Can't start nodes Brad Chapman
• 2012/07/23 Re: [galaxy-user] "Jobs is waiting to run" all day on Main Jennifer Jackson
• 2012/07/23 Re: [galaxy-user] "Jobs is waiting to run" all day on Main Jennifer Jackson
• 2012/07/23 [galaxy-user] CloudMan - Can't start nodes mailing list
• 2012/07/23 Re: [galaxy-user] flaking regions across TSS shamsher jagat
• 2012/07/23 Re: [galaxy-user] cufflinks eference annotation Jennifer Jackson
• 2012/07/22 Re: [galaxy-user] cufflinks eference annotation Jennifer Jackson

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