--- Proxy authentication error, how to fix it?...(44223)
--- Aligned Data QC for RNA-Seq...(33088)
--- MiRNA alignment and quantification...(27585)
--- Raw Data QC of RNA-Seq Data...(21657)
--- Genome browser alignment filters...(20525)
--- Fusion strand and strands of fusion partners...(19565)
--- Master Server and Analytic Server...(16520)
--- Comparison.GeneSetAnalysis...(15171)
--- Align Ion Torrent reads...(14012)
--- How to use multiple sequence files for one sample?...(13560)
--- ArrayStudio ClickOnce Launch in Mac...(13352)
--- TPM and FPKM...(13123)
--- Sort Profile in Land by Custom Order...(11588)
--- Example of running 100 CCLE samples on cloud...(11403)
--- Setup ArrayServer in Cluster...(10678)
--- Alignment and read counts...(10623)
--- Alternative splicing check...(10152)
--- OncoLand Case Study - SampleSets with Grouping...(10000)
--- Visualization of RNA-Seq Aligned Data...(9492)
--- Typical way to update/restart ArrayServer...(9186)
--- Common ArrayStudio Launching Issues...(9175)
--- Array Viewer Links...(9043)
--- OncoLand Case Study - Summarize Mutation Count...(8791)
--- How to resolve HRESULT 0x8007000B Error...(8453)
--- OmicSoft Aligner Version 4 (OSA4) Benchmark...(8217)
--- Alternative splicing detection...(8173)
--- Omicsoft Gene Model...(8113)
--- Plot Per-Gene Expression in a Sample to Compare GeneSets...(7958)
--- Master and Analytic Servers...(7740)
--- What is Fold Change...(7737)
--- OncoLand Case Study - Custom Query...(7307)
--- Hardware / Software requirements for Array Server...(7249)
--- Annotate Variants in Array Studio...(7212)
--- Import Expression Data...(7200)
--- Setting up ulimit for ArrayServer...(6532)
--- OncoLand Case Study - Co-mutated Genes...(6440)
--- Steps to build AWS ArrayServer with cloud plugin...(6283)
--- Get out of memory error...(6239)
--- Find a list of genes showing differential expression between two groups of samples...(6215)
--- Recover From Analysis With Error...(6134)
--- Omicsoft RPKM/FPKM/Count values...(6090)
--- Generate copy number baseline for NGS data...(5873)
--- Reorder variables or observations in Microarray data...(5299)
--- Agilent CGH QC Metric...(5293)
--- Genome Browser Sequence Legend...(5093)
--- Logic to determine paired-end read files and sample name...(4996)
--- OncoLand Case Studies...(4984)
--- Gene sets curated by OmicSoft from Land...(4839)
--- Track Properties...(4551)
--- Frequently Asked Land Questions...(4477)
--- RNA-Seq Normalized FPKM Values in Land...(4462)
--- Heatmap normalization...(4175)
--- Ftp connection can not be established between server and client after trying 100 rounds of multi-threaded ftp...(4114)
--- Omicsoft GenCode Gene Model...(3705)
--- How to compile Alignment Report from bam.summary.txt file...(3655)
--- User GenomeMark to bookmark regions in genome browser...(3610)
--- Error Instance creation is not successful...(3590)
--- Factors that affect alignment time...(3548)
--- How Omicsoft calculated percentage values in alteration distribution plot in Land...(3537)
--- Mask heatmap rows or columns...(3527)
--- Isoform expression profile view in genome browser...(3501)
--- Charting error in Oshell or ArrayServer run...(3463)
--- Getting started with Array Studio...(3454)
--- Installation Requirements For Array Studio...(3405)
--- OncoLand Case Study - Clinical Variables...(3391)
--- MultiplicityAdjustment...(3298)
--- OmicSoft BoxPlot...(3244)
--- GeneBas.GenomeBrowser...(3182)
--- How to make survival plots for sample categories defined by expression and/or mutations in OncoLand...(3157)
--- Multiple ways to add sampleset in Land...(3070)
--- Filter for significant genes from multiple tests...(3069)
--- Convert inference report to MicroArray data...(3011)
--- How to highlight selected genes in a scatter plot in Array Studio...(2997)
--- NGS Copy Number Analysis Using OmicSoft...(2985)
--- Different quality encoding...(2970)
--- Check List for ArrayServer Migration...(2931)
--- How to remove land local cache...(2857)
--- ClinicalGroupAssociation...(2831)
--- Open ArrayStudioLauncher with a link to content...(2751)
--- Generate and run OmicScript in ArrayStudio GUI...(2703)
--- How to make survival plots for customized sample categories...(2672)
--- Is Estimate the same as a fold change? If not, what is a Fold Change?...(2636)
--- Create GeneSet From Synonyms...(2621)
--- Error for hash HashValidation...(2611)
--- Error Can not connect to Omicsoft server for license checking and online streaming...(2598)
--- How can we avoid auto-updates that occur upon starting up ArrayStudio...(2564)
--- GCF...(2561)
--- EnableAWSSpot...(2541)
--- Control run or not for each Oscirpt block in the pipeline...(2470)
--- CNV data preprocessing for Affymetrix SNP Array...(2411)
--- Quantification in Strand Specific RNA-Seq dataset...(2380)
--- How to export annotated mutation report in batch mode?...(2375)
--- Difference between Summarize Mutation Data and Summarize VCF Data (SAMTools)...(2350)
--- Does Array Studio have a workflow for paired-end strand-specific RNA-seq?...(2295)
--- Land normalization of expression data...(2277)
--- Create a searchable shortcut to OmicSoft wiki...(2272)
--- Example .proxy file...(2267)
--- HTTP Error 500.19 0x8007007e...(2265)
--- ODP setup for Windows ArrayServer using Oracle Database...(2263)
--- How to install .NET 3.5 on Windows Server...(2254)

--- View Multiple Gene Regions...(2223)
--- Land Mutation Annotation from VariantClassifiers...(2182)
--- Cannot Start Mono Job Error...(2153)
--- DESeq vs DESeq R Package...(2144)
--- Setting Proxy For Omicsoft ArrayServer...(2096)
--- User Group Meeting 2017...(2089)
--- Which columns will be indexed as masterid for search in ArrayServer...(2063)
--- Maximum number of novel exon junctions...(2062)
--- In Land why I can see a few somatic mutations identified in normal or control samples...(2046)
--- Compute copy number log2ratio values from Affymetrix SNP arrays...(2006)
--- ArrayServer cannot get real time job log when running on the cluster...(2000)
--- Example of seeting cluster parallel environment...(1911)
--- What is the difference between Mutations and Somatic mutations Analysis?...(1910)
--- Error=Too many open files...(1874)
--- Errors related to bugs in Microsoft .Net framework 2.0...(1864)
--- Order of samples and variables in hierarchical clustering...(1849)
--- Array Studio IT Requirements...(1845)
--- Trim UTRs by data in RNA-Seq Analysis...(1812)
--- Genome Browser Use Case: Access genome browser session via hyperlinks in an excel file...(1804)
--- What is the benefit of using the Sample Management System in Array Studio?...(1771)
--- Refresh design table with server metadata...(1765)
--- Common ArrayServer Issues...(1746)
--- How is the quality score used in alignment?...(1724)
--- Transcirpt quantification is affected by positional bias...(1717)
--- Autofill web service...(1711)
--- I am getting the error "Application cannot be started" when I try to launch the webstart application...(1705)
--- "Could not find file" error...(1695)
--- BAM...(1637)
--- Restore Fastq Files From BAM...(1630)
--- Why count data are not integers from OmicSoft quantification...(1625)
--- Search Read Name in Genome Browser...(1618)
--- OncoLand Case Study - Cox Model...(1609)
--- Modify ArrayStudio ClickOnce Launch Link in Mac...(1599)
--- How do I find out what parameters were used for a particular workflow or used to generate a dataset or table?...(1593)
--- ClinicalVariable...(1584)
--- CustomQueryOmicprintView...(1581)
--- Multiple panels/views in Genome Browser...(1568)
--- Omicsoft GenCode Gene ModelV27...(1567)
--- ClinicalDistribution...(1565)
--- Expression of a gene set in Lands...(1552)
--- Database disk image is malformed...(1522)
--- Publish local project with NGS data...(1509)
--- How can I analyze NGS data on a list of customized region only...(1487)
--- Data Details...(1474)
--- Hardware/software requirements for LandExplorer...(1461)
--- Merge fusion report of individual runs or samples...(1461)
--- Values given in the column DbsnpCategory...(1452)
--- Naive Count For miRNA...(1451)
--- OncoLand Case Study - Differential Expression within and between Tumor Types...(1446)
--- When shall RNA-Seq quantification results be transformed/normalized?...(1436)
--- GeneDistribution...(1427)
--- User Guides for Array Studio or Array Server...(1416)
--- Difference between "Map Reads to Genome (Illumina)" and "Map read to Genome (long reads)"...(1409)
--- Error during fastq-dump step in downloadSRA job...(1383)
--- Include duplicate reads in DNA-Seq data...(1377)
--- Sharing project(s) using ArrayServer and ArrayViewer...(1377)
--- Land Explorer did not find any lands from your server...(1372)
--- Grey zone in dendrogram (heatmap) after filtering...(1350)
--- Libgdiplus complie error...(1334)
--- View Integration: Measurement Data vs Gene Expression...(1323)
--- Check multi-read mapping...(1316)
--- How is gene model used in RNA-Seq alignment...(1314)
--- Understand Filter Ngs Files reports...(1288)
--- Bas and BAM files...(1277)
--- Create and apply list filter to land views...(1250)
--- Export Consensus Sequence...(1249)
--- GSEA could not find buckets file...(1230)
--- How is pair information used in RNA-Seq alignment...(1221)
--- Getting downloading error when analyzing microarray data...(1218)
--- Mageck Pscript demo.pdf...(1216)
--- Survival view in analysis tab...(1211)
--- Cloud error message: Not sufficient capacity in cloud...(1195)
--- How to check the installation and enable .NET 3.5 in Windows...(1194)
--- Change resolution of exported images...(1189)
--- I am trying to normalize data using quantile normalization, but this doesn’t handle missing data. What is recommended?...(1180)
--- How can I connect data points from the same sample by lines in views?...(1179)
--- ComparisonDistribution...(1158)
--- Interpret and visualize fusion report...(1152)
--- How to make RNA-Seq gene ID recognized by MicroArray modules...(1138)
--- Http Link to ArrayLand Views...(1135)
--- The requested view cannot be retrieved from server...(1133)
--- Save Project After Each Important Step During Analysis...(1125)
--- How to save filters and filtered data...(1117)
--- Cannot create channel sink to connect to URL...(1109)
--- Why I cannot zoom heatmap?...(1106)
--- CustomQueryHistogramView...(1096)
--- How can I merge multiple projects into a single project in Array Studio?...(1091)
--- Application validation did not succeed...(1086)
--- OncoLand Case Study - OncoGEO...(1071)
--- Output all entries for a specific field...(1054)
--- Which columns will be indexed as ID for autofill in ArrayServer Search...(1050)
--- Viewing novel exon junctions in the genome browser...(1035)
--- Paired-end reads filtering...(1033)
--- Revoke/unpublish a project from ArrayServer...(1028)
--- PathwayDistribution...(1015)
--- Error: Unable to read beyond the end of the stream...(1002)
--- Tips In Setting Up Oshell...(999)
--- Which algorithm / parameters are used in searching illumina adaptors sequences?...(999)
--- Why do I see zero effective alignment counts after adding aligned BAM files...(979)
--- Why the .osreg files I put in Instruction folder are not processed?...(974)

--- FusionMap...(155475)
--- Omicsoft KnowledgeBase...(141572)
--- Online Help...(118200)
--- Getting Started...(105593)
--- Tutorials...(103216)
--- ArrayServer.cfg...(93333)
--- Server Online Help...(82851)
--- Oshell...(82650)
--- ArrayLand Online Help...(78954)
--- LandTools...(71078)
--- Array Server Requirements...(69596)
--- OmicScript pipeline for RNA-Seq data analysis...(65076)
--- Fusion gene detection in RNA-Seq...(52342)
--- Genome Browser Online Help...(51381)
--- Proxy authentication error, how to fix it?...(44223)
--- ArrayStudio Online Help...(41500)
--- Building Land From Raw Data...(40093)
--- Running Array Server in Windows...(37870)
--- ArrayLand Configuration Options...(36910)
--- A list of compiled genome and gene model from OmicSoft...(36708)
--- Best Practices...(35228)
--- RNA-Seq Getting Started Old...(35082)
--- ArrayServer Online Help...(34004)
--- Aligned Data QC for RNA-Seq...(33088)
--- Sample Registration File...(31163)

--- Ngs SummarizeMutation2Snp.pdf...(30672)
--- Land R API...(30468)
--- OSA...(30207)
--- Getting Started with RNAseq Analysis...(27918)
--- Sample.template...(27842)
--- MiRNA alignment and quantification...(27585)
--- External Script Integration...(27379)
--- Build AWS Ubuntu AMI for OmicSoft Cloud Computing...(25583)
--- User Guides...(23401)
--- Ngs ReportGeneTranscriptCounts.pdf...(22856)
--- Ngs RnaSeqPipeline.pdf...(22683)
--- GeneSetAnalysis.pdf...(21932)
--- MapRnaSeqReadsToGenome...(21810)
--- Raw Data QC of RNA-Seq Data...(21657)
--- NormalizeNgsData.pdf...(21549)
--- GTT...(21345)
--- Genome browser alignment filters...(20525)
--- Ngs AnnotateVcfData.pdf...(20448)
--- Normalize.pdf...(20257)
--- Ngs ReportExonCounts.pdf...(20225)
--- Build ComparisonLand From Raw Data...(19762)
--- Fusion strand and strands of fusion partners...(19565)
--- Getting Started with Microarray Analysis...(19295)
--- Ngs SummarizeMatchedPairVariation.pdf...(18963)
--- Getting Started With Server Analysis...(18941)