Anders2013: Revision history

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curprev 10:5210:52, 24 February 2024‎ Brb talk contribs‎ 151,501 bytes +89‎ →‎results(contrast)

curprev 21:0621:06, 28 January 2024‎ Brb talk contribs‎ 151,412 bytes +138‎ →‎DESeq2, edgeR, limma

curprev 21:1721:17, 22 August 2023‎ Brb talk contribs‎ 151,274 bytes +140‎ →‎Comparison

curprev 09:4409:44, 9 August 2023‎ Brb talk contribs‎ 151,134 bytes +29‎ →‎recount3
curprev 09:4409:44, 9 August 2023‎ Brb talk contribs‎ 151,105 bytes +129‎ →‎recount2
curprev 09:4209:42, 9 August 2023‎ Brb talk contribs‎ 150,976 bytes +169‎ →‎Comparison

curprev 13:0713:07, 27 July 2023‎ Brb talk contribs‎ 150,807 bytes +350‎ →‎betaPrior is FALSE by default

curprev 16:3916:39, 19 July 2023‎ Brb talk contribs‎ 150,457 bytes +128‎ →‎estimateDispersions()
curprev 10:2910:29, 19 July 2023‎ Brb talk contribs‎ 150,329 bytes +102‎ →‎DESeq2 for DE analysis

curprev 12:0012:00, 7 June 2023‎ Brb talk contribs‎ 150,227 bytes +321‎ →‎Massive Mining of Publicly Available RNA-seq Data from Human and Mouse

curprev 15:0415:04, 21 May 2023‎ Brb talk contribs‎ 149,906 bytes +95‎ →‎collapseReplicates

curprev 14:3114:31, 9 May 2023‎ Brb talk contribs‎ 149,811 bytes +327‎ →‎DESeq() and gene filtering

curprev 21:5921:59, 29 April 2023‎ Brb talk contribs‎ 149,484 bytes +85‎ →‎Values returned from results()

curprev 10:4310:43, 28 April 2023‎ Brb talk contribs‎ 149,399 bytes +448‎ →‎Normalized counts = counts/sizeFactor

curprev 12:4612:46, 16 April 2023‎ Brb talk contribs‎ 148,951 bytes +228‎ →‎Values returned from results()
curprev 12:4312:43, 16 April 2023‎ Brb talk contribs‎ 148,723 bytes +411‎ →‎DESeq2 paired multifactor test

curprev 19:5719:57, 11 April 2023‎ Brb talk contribs‎ 148,312 bytes +319‎ →‎Normalized counts = counts/sizeFactor

curprev 16:2116:21, 30 March 2023‎ Brb talk contribs‎ 147,993 bytes +154‎ →‎DESeq() and gene filtering

curprev 13:5513:55, 11 April 2022‎ Brb talk contribs‎ 147,839 bytes +133‎ →‎rtracklayer package
curprev 13:5313:53, 11 April 2022‎ Brb talk contribs‎ 147,706 bytes +18‎ →‎R

curprev 17:1917:19, 16 February 2022‎ Brb talk contribs‎ 147,688 bytes +575‎ →‎Comparison

curprev 12:5712:57, 29 December 2021‎ Brb talk contribs‎ 147,113 bytes −106‎ →‎sam/bam, "samtools view" and Rsamtools Tags: mobile edit mobile web edit advanced mobile edit
curprev 10:1810:18, 29 December 2021‎ Brb talk contribs‎ 147,219 bytes +429‎ →‎results(contrast)

curprev 17:4117:41, 22 December 2021‎ Brb talk contribs‎ 146,138 bytes +91‎ →‎collapseReplicates

curprev 10:2710:27, 19 December 2021‎ Brb talk contribs‎ 146,047 bytes +329‎ →‎Source code

curprev 16:0516:05, 12 December 2021‎ Brb talk contribs‎ 145,718 bytes +138‎ →‎results(contrast)
curprev 12:4412:44, 12 December 2021‎ Brb talk contribs‎ 145,580 bytes +12‎ →‎Normalized counts = counts/sizeFactor

curprev 16:4016:40, 24 November 2021‎ Brb talk contribs‎ 141,485 bytes +1,280‎ →‎Splice junction
curprev 11:0711:07, 24 November 2021‎ Brb talk contribs‎ 140,205 bytes +675‎ →‎gff/gtf

curprev 17:1617:16, 29 October 2021‎ Brb talk contribs‎ 139,530 bytes 0‎ →‎Pipeline
curprev 17:1417:14, 29 October 2021‎ Brb talk contribs‎ 139,530 bytes +158‎ →‎Error with DESeq2
curprev 08:1708:17, 29 October 2021‎ Brb talk contribs‎ 139,372 bytes +1,723‎ →‎DESeq2 for DE analysis

curprev 21:2621:26, 9 September 2021‎ Brb talk contribs‎ 137,649 bytes +383‎ →‎Normalized counts = counts/sizeFactor
curprev 09:1909:19, 9 September 2021‎ Brb talk contribs‎ 137,266 bytes +168‎ →‎DESeq2 normalization

curprev 13:0513:05, 2 September 2021‎ Brb talk contribs‎ 137,098 bytes +115‎ →‎Comparison

curprev 10:5310:53, 3 July 2021‎ Brb talk contribs‎ 136,983 bytes +234‎ →‎Comparison

curprev 09:2909:29, 24 June 2021‎ Brb talk contribs‎ 136,749 bytes +184‎ →‎Source code

curprev 11:1211:12, 9 March 2021‎ Brb talk contribs‎ 136,565 bytes +226‎ →‎Convert SRA to FASTQ (sra -> fastq)

curprev 11:3311:33, 7 July 2020‎ Brb talk contribs‎ 136,339 bytes +1,195‎ →‎DESeq2 for DE analysis

curprev 10:0610:06, 5 July 2020‎ Brb talk contribs‎ 135,144 bytes +198‎ →‎DESeq2 for DE analysis

curprev 12:3312:33, 3 July 2020‎ Brb talk contribs‎ 134,946 bytes +106‎ →‎estimateSizeFactorsForMatrix()
curprev 11:0511:05, 3 July 2020‎ Brb talk contribs‎ 134,840 bytes +51‎ →‎Source code
curprev 10:5910:59, 3 July 2020‎ Brb talk contribs‎ 134,789 bytes +508‎ →‎estimateSizeFactorsForMatrix()
curprev 10:4510:45, 3 July 2020‎ Brb talk contribs‎ 134,281 bytes +237‎ →‎Normalization-based vs log-ratio transformation-based methods

curprev 21:5321:53, 2 July 2020‎ Brb talk contribs‎ 134,044 bytes +99‎ →‎Negative binomial regression for count data

curprev 21:4421:44, 21 June 2020‎ Brb talk contribs‎ 133,945 bytes +26‎ →‎TCGA/The Cancer Genome Atlas
curprev 21:4421:44, 21 June 2020‎ Brb talk contribs‎ 133,919 bytes +1,100‎ →‎TCGA/The Cancer Genome Atlas
curprev 21:1321:13, 21 June 2020‎ Brb talk contribs‎ 132,819 bytes +1,810‎ →‎TCGA/The Cancer Genome Atlas

curprev 18:1318:13, 9 February 2020‎ Brb talk contribs‎ 131,009 bytes +62‎ →‎Source code
curprev 17:5217:52, 9 February 2020‎ Brb talk contribs‎ 130,947 bytes +126‎ →‎DESeq2 normalization
curprev 17:5117:51, 9 February 2020‎ Brb talk contribs‎ 130,821 bytes +326‎ →‎Source code
curprev 17:2417:24, 9 February 2020‎ Brb talk contribs‎ 130,495 bytes +675‎ →‎DESeq2 normalization

curprev 22:3122:31, 5 February 2020‎ Brb talk contribs‎ 129,820 bytes +150‎ →‎gff/gtf

curprev 10:1310:13, 20 February 2019‎ Brb talk contribs‎ 129,670 bytes +175‎ →‎Convert SRA to FASTQ (sra -> fastq)

curprev 13:5013:50, 7 February 2019‎ Brb talk contribs‎ 129,495 bytes +264‎ →‎ReadCounter - htseq alternative
curprev 12:5212:52, 7 February 2019‎ Brb talk contribs‎ 129,231 bytes +119‎ No edit summary

curprev 14:5114:51, 9 October 2018‎ Brb talk contribs‎ 129,112 bytes +87‎ →‎bed

curprev 12:3712:37, 8 August 2018‎ Brb talk contribs‎ 129,025 bytes +308‎ →‎SRA

curprev 21:1021:10, 24 July 2018‎ Brb talk contribs‎ 128,717 bytes +280‎ →‎DESeq2 normalization

curprev 14:5614:56, 19 January 2018‎ Brb talk contribs‎ 128,437 bytes +316‎ →‎Read quality issues

curprev 12:3012:30, 18 January 2018‎ Brb talk contribs‎ 128,121 bytes +84‎ →‎chromosome names

curprev 12:3112:31, 15 December 2017‎ Brb talk contribs‎ 128,037 bytes +40‎ →‎GATK

curprev 15:4115:41, 17 October 2017‎ Brb talk contribs‎ 127,997 bytes +83‎ →‎Other alignment methods
curprev 13:1513:15, 17 October 2017‎ Brb talk contribs‎ 127,914 bytes +34‎ →‎chromosome sizes
curprev 13:1213:12, 17 October 2017‎ Brb talk contribs‎ 127,880 bytes +716‎ →‎chromosome sizes

curprev 13:5813:58, 30 September 2017‎ Brb talk contribs‎ 127,164 bytes +183‎ →‎Misc

curprev 15:5215:52, 25 September 2017‎ Brb talk contribs‎ 126,981 bytes +363‎ →‎Required tools
curprev 15:2715:27, 25 September 2017‎ Brb talk contribs‎ 126,618 bytes +9‎ →‎Pipeline
curprev 15:2615:26, 25 September 2017‎ Brb talk contribs‎ 126,609 bytes +213‎ →‎Pipeline

curprev 16:0916:09, 15 September 2017‎ Brb talk contribs‎ 126,396 bytes +153‎ →‎Other alignment methods
curprev 08:4408:44, 15 September 2017‎ Brb talk contribs‎ 126,243 bytes +247‎ →‎Other RNA-Seq tools

curprev 10:3510:35, 6 September 2017‎ Brb talk contribs‎ 125,996 bytes +98‎ →‎Reproducible RNA-Seq analysis
curprev 10:3210:32, 6 September 2017‎ Brb talk contribs‎ 125,898 bytes +126‎ →‎What's special with rna-seq count data

curprev 10:3210:32, 21 August 2017‎ Brb talk contribs‎ 125,772 bytes +136‎ →‎IGB

curprev 22:5622:56, 11 August 2017‎ Brb talk contribs‎ 125,636 bytes −1‎ →‎recount2: A multi-experiment resource of analysis-ready RNA-seq gene and exon count datasets
curprev 22:5522:55, 11 August 2017‎ Brb talk contribs‎ 125,637 bytes +132‎ →‎recount2: A multi-experiment resource of analysis-ready RNA-seq gene and exon count datasets

curprev 14:4014:40, 3 August 2017‎ Brb talk contribs‎ 125,505 bytes +180‎ →‎Differential expression analysis
curprev 14:3914:39, 3 August 2017‎ Brb talk contribs‎ 125,325 bytes +220‎ →‎Techniques for characterizing RNA transcripts

curprev 09:5309:53, 2 August 2017‎ Brb talk contribs‎ 125,105 bytes +48‎ →‎qRT-PCR -> Microarray -> Nanostring -> RNA-Seq
curprev 09:5209:52, 2 August 2017‎ Brb talk contribs‎ 125,057 bytes +183‎ →‎Correlation between RNA-Seq and microarrays

curprev 16:2416:24, 27 July 2017‎ Brb talk contribs‎ 124,874 bytes +84‎ →‎recount2
curprev 16:2316:23, 27 July 2017‎ Brb talk contribs‎ 124,790 bytes +63‎ →‎Other RNA-Seq tools

curprev 11:3911:39, 25 July 2017‎ Brb talk contribs‎ 124,727 bytes +164‎ →‎Other RNA-Seq tools
curprev 11:3611:36, 25 July 2017‎ Brb talk contribs‎ 124,563 bytes +188‎ →‎What's special with rna-seq count data

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