User contributions
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- 21:07, 13 September 2011 (diff | hist) . . (+1,305) . . N 21876754 (Created page with "{{Reference |reference describes=Meraculous |pmid=21876754 |title=Meraculous: de novo genome assembly with short paired-end reads. |year=2011 |journal=PLoS One |author=Chapman JA...") (current)
- 21:05, 13 September 2011 (diff | hist) . . (+104) . . N Meraculous/URL 0 (Created page with "{{URL |url describes=Meraculous |type=Source code |url=ftp://ftp.jgi-psf.org/pub/JGI_data/meraculous/ }}") (current)
- 21:04, 13 September 2011 (diff | hist) . . (+235) . . N Meraculous (Created page with "{{Bioinformatics application |sw summary=De novo genome assembler from short reads |bio method=Assembly }} == Description == <!-- Describe the application in the space below -->...")
- 16:16, 9 September 2011 (diff | hist) . . (+615) . . How-to/SNP detection (→SNP detection)
- 16:10, 9 September 2011 (diff | hist) . . (+141) . . How-to/scaffolding (→Scaffolding)
- 16:07, 9 September 2011 (diff | hist) . . (+7) . . How-to/de novo transcript assembly (→De-novo short read assemblers of Transcriptomes)
- 16:06, 9 September 2011 (diff | hist) . . (+4) . . How-to/RNASeq analysis (→Compressing aligned reads using SAMtools)
- 16:05, 9 September 2011 (diff | hist) . . (+20) . . How-to/short read aligners (→Free software)
- 16:04, 9 September 2011 (diff | hist) . . (-14) . . How-to/short read aligners (→Free software)
- 16:03, 9 September 2011 (diff | hist) . . (+171) . . How-to/short read aligners (→Free software)
- 16:02, 9 September 2011 (diff | hist) . . (+127) . . N TMAP/URL 0 (Created page with "{{URL |url describes=TMAP |type=Source code |url=http://ioncommunity.iontorrent.com/docs/DOC-1842 }} Free registration required") (current)
- 16:00, 9 September 2011 (diff | hist) . . (+511) . . N TMAP (Created page with "{{Bioinformatics application |sw summary=TMAP is a short read aligner specifically tuned for data from the Ion Torrent PGM |bio method=Mapping, |created at=Ion Torrent |maintain...")
- 15:58, 9 September 2011 (diff | hist) . . (+90) . . How-to/short read aligners (→Short read mapping)
- 15:57, 9 September 2011 (diff | hist) . . (+140) . . How-to/de novo assembly (→Newbler)
- 15:55, 9 September 2011 (diff | hist) . . (+30) . . How-to/de novo assembly (→De-novo short read assemblers)
- 15:52, 9 September 2011 (diff | hist) . . (+8) . . How-to/SNP detection (→GATK)
- 15:51, 9 September 2011 (diff | hist) . . (+1,839) . . How-to/SNP detection (→SNP detection)
- 15:40, 9 September 2011 (diff | hist) . . (+4) . . How-to/SNP detection (→SOAPsnp)
- 16:31, 31 August 2011 (diff | hist) . . (+21) . . PileLine
- 16:30, 31 August 2011 (diff | hist) . . (+1,222) . . N 21646339 (Created page with "{{Reference |reference describes=PileLine |pmid=21646339 |title=PileLineGUI: a desktop environment for handling genome position files in next-generation sequencing studies. |ye...") (current)
- 16:28, 31 August 2011 (diff | hist) . . (+40) . . PileLine
- 16:22, 31 August 2011 (diff | hist) . . (+1,043) . . N 21724594 (Created page with "{{Reference |reference describes=MethylCoder |pmid=21724594 |title=MethylCoder: software pipeline for bisulfite-treated sequences. |year=2011 |journal=Bioinformatics |author=Pede...") (current)
- 16:04, 31 August 2011 (diff | hist) . . (+101) . . N FDM/URL 0 (Created page with "{{URL |url describes=FDM |type=Homepage |url=http://csbio-linux001.cs.unc.edu/nextgen/software/FDM }}")
- 16:03, 31 August 2011 (diff | hist) . . (+2,708) . . N 21824971 (Created page with "{{Reference |reference describes=FDM |pmid=21824971 |title=FDM: A Graph-based Statistical Method to Detect Differential Transcription using RNA-seq data |year=2011 |journal=Bioin...") (current)
- 16:00, 31 August 2011 (diff | hist) . . (+258) . . N FDM (Created page with "{{Bioinformatics application |sw summary=Detects differential transcription in RNA-Seq data |bio domain=RNA-Seq Quantitation, }} == Description == <!-- Describe the application...")
- 15:57, 31 August 2011 (diff | hist) . . (+144) . . N Standardized Velvet Assembly Report/URL 0 (Created page with "{{URL |url describes=Standardized Velvet Assembly Report |type=Source code |url=http://code.google.com/p/standardized-velvet-assembly-report/ }}") (current)
- 15:56, 31 August 2011 (diff | hist) . . (+366) . . N Standardized Velvet Assembly Report (Created page with "{{Bioinformatics application |sw summary=A set of scripts and a Sweave report used to iterate through parameters and generate a report on Velvet-generated sequence assemblies |in...")
- 15:35, 31 August 2011 (diff | hist) . . (+119) . . N VelvetOptimiser/URL 0 (Created page with "{{URL |url describes=VelvetOptimiser |type=Homepage |url=http://bioinformatics.net.au/software.velvetoptimiser.shtml }}") (current)
- 15:17, 31 August 2011 (diff | hist) . . (+376) . . N VelvetOptimiser (Created page with "{{Bioinformatics application |sw summary=VelvetOptimiser is a multi-threaded Perl script for automatically optimising the parameter options for the Velvet de novo sequence assemb...")
- 05:59, 14 August 2011 (diff | hist) . . (+955) . . N 21835007 (Created page with "{{Reference |reference describes=TopHat-Fusion |pmid=21835007 |title=TopHat-Fusion: an algorithm for discovery of novel fusion transcripts. |year=2011 |journal=Genome Biology |au...") (current)
- 21:17, 5 August 2011 (diff | hist) . . (+1,534) . . N 21813454 (Created page with "{{Reference |reference describes=SNVer |pmid=21813454 |title=SNVer: a statistical tool for variant calling in analysis of pooled or individual next-generation sequencing data. |y...") (current)
- 21:16, 5 August 2011 (diff | hist) . . (+79) . . N SNVer/URL 0 (Created page with "{{URL |url describes=SNVer |type=Homepage |url=http://snver.sourceforge.net/ }}") (current)
- 21:15, 5 August 2011 (diff | hist) . . (+255) . . N SNVer (Created page with "{{Bioinformatics application |sw summary=Variant calling in pooled or individual sequence data. |bio domain=SNP discovery, }} == Description == <!-- Describe the application in ...")
- 21:10, 5 August 2011 (diff | hist) . . (+2,048) . . N 21810899 (Created page with "{{Reference |reference describes=SEED |pmid=21810899 |title=SEED: Efficient Clustering of Next Generation Sequences. |year=2011 |journal=Bioinformatics |author=Bao E, Jiang T, Ka...") (current)
- 21:09, 5 August 2011 (diff | hist) . . (+96) . . N SEED/URL 0 (Created page with "{{URL |url describes=SEED |type=Homepage |url=http://manuals.bioinformatics.ucr.edu/home/seed }}") (current)
- 21:07, 5 August 2011 (diff | hist) . . (+267) . . N SEED (Created page with "{{Bioinformatics application |sw summary=Tool to cluster sequence reads prior to assembly or other operations. |bio method=Clustering, }} == Description == <!-- Describe the app...")
- 16:21, 5 August 2011 (diff | hist) . . (+1,031) . . N 21653522 (Created page with "{{Reference |reference describes=VCFtools |pmid=21653522 |title=The variant call format and VCFtools. |year=2011 |journal=Bioinformatics |author=Danecek P, Auton A, Abecasis G, A...") (current)
- 16:19, 5 August 2011 (diff | hist) . . (+16) . . VCFtools
- 16:18, 5 August 2011 (diff | hist) . . (+84) . . VCFtools
- 03:30, 3 August 2011 (diff | hist) . . (+1,199) . . N 21685085 (Created page with "{{Reference |reference describes=FlowSim |pmid=21685085 |title=Systematic exploration of error sources in pyrosequencing flowgram data. |year=2011 |journal=Bioinformatics |author...") (current)
- 03:28, 3 August 2011 (diff | hist) . . (+94) . . N FlowSim/URL 0 (Created page with "{{URL |url describes=FlowSim |type=Homepage |url=http://biohaskell.org/Applications/FlowSim }}") (current)
- 03:28, 3 August 2011 (diff | hist) . . (+299) . . N FlowSim (Created page with "{{Bioinformatics application |sw summary=Tool for simulating errors in 454 sequencing data |bio method=Error correction, Simulation, |bio tech=454 |language=Haskell, }} == Desc...")
- 20:09, 7 June 2011 (diff | hist) . . (+92) . . N Illuminator/URL 0 (Created page with "{{URL |url describes=Illuminator |type=Homepage |url=http://dna.leeds.ac.uk/illuminator/. }}") (current)
- 20:08, 7 June 2011 (diff | hist) . . (+1,396) . . N 21621601 (Created page with "{{Reference |reference describes=Illuminator |pmid=21621601 |title=Illuminator, a desktop program for mutation detection using short-read clonal sequencing. |year=2011 |journal=G...") (current)
- 18:32, 7 June 2011 (diff | hist) . . (+2) . . RNA
- 18:31, 7 June 2011 (diff | hist) . . (+1) . . Zorro
- 18:30, 7 June 2011 (diff | hist) . . (+18) . . Kissnp
- 18:30, 7 June 2011 (diff | hist) . . (+331) . . N Illuminator (Created page with "{{Bioinformatics application |sw summary=Software for machines running Windows to identify variants in Illumina short read data. |bio method=SNP/indel Discovery, |bio tech=Illum...")
- 18:27, 7 June 2011 (diff | hist) . . (+2) . . Mapsembler
- 18:26, 7 June 2011 (diff | hist) . . (+1) . . SeqAn
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