User contributions
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- 08:08, 4 August 2017 (diff | hist) . . (+34) . . JBrowse (current)
- 18:37, 30 July 2017 (diff | hist) . . (+462) . . ChIP-Seq Top2 in Yeast
- 18:35, 30 July 2017 (diff | hist) . . (+2) . . ChIP-Seq Top2 in Yeast
- 18:34, 30 July 2017 (diff | hist) . . (+134) . . ChIP-Seq Top2 in Yeast
- 18:23, 30 July 2017 (diff | hist) . . (+274) . . ChIP-Seq Top2 in Yeast
- 18:20, 30 July 2017 (diff | hist) . . (-40) . . Main Page
- 18:19, 30 July 2017 (diff | hist) . . (+425) . . N ChIP-Seq Top2 in Yeast (Created page with "= Introduction = This wiki page combines the two sequencing experiments of ChIP-Seq on yeast samples udring June / July 2017. * ChIP-Seq Top2 peak-calling * ChIP-Seq T...")
- 07:50, 21 July 2017 (diff | hist) . . (+466) . . ChIP-Seq Top2 peak-calling E2
- 21:27, 20 July 2017 (diff | hist) . . (-53) . . ChIP-Seq Top2 peak-calling E2
- 21:23, 20 July 2017 (diff | hist) . . (+1,245) . . ChIP-Seq Top2 peak-calling E2
- 13:35, 20 July 2017 (diff | hist) . . (+269) . . JBrowse
- 10:27, 20 July 2017 (diff | hist) . . (+1,318) . . SWATH-MS Data Analysis (current)
- 14:30, 18 July 2017 (diff | hist) . . (+127) . . FASTQC and MultiQC (current)
- 13:44, 18 July 2017 (diff | hist) . . (+365) . . FASTQC and MultiQC
- 17:37, 17 July 2017 (diff | hist) . . (+35) . . ChIP-Seq Top2 peak-calling E2
- 17:32, 17 July 2017 (diff | hist) . . (0) . . ChIP-Seq Top2 peak-calling E2
- 17:29, 17 July 2017 (diff | hist) . . (+36) . . Main Page
- 17:26, 17 July 2017 (diff | hist) . . (-978) . . m ChIP-Seq Top2 peak-calling E2
- 17:08, 17 July 2017 (diff | hist) . . (+1,446) . . ChIP-Seq Top2 peak-calling E2
- 16:57, 17 July 2017 (diff | hist) . . (+4,892) . . N ChIP-Seq Top2 peak-calling E2 (Created page with "= Introduction = ChIP-Seq on Mutant vs. Wildtype, two states, 4 sets of pairs each, for a total of 16 pairs of paired-end datasets. The generic pipeline One of the authors...")
- 16:45, 17 July 2017 (diff | hist) . . (+13) . . ChIP-Seq Top2 peak-calling
- 14:58, 12 July 2017 (diff | hist) . . (+303) . . ChIP-Seq Top2 peak-calling
- 14:52, 12 July 2017 (diff | hist) . . (+289) . . ChIP-Seq Top2 peak-calling
- 14:46, 12 July 2017 (diff | hist) . . (0) . . N File:Uls1 teld0.png (current)
- 14:45, 12 July 2017 (diff | hist) . . (0) . . N File:Wt teld0.png (current)
- 10:55, 12 July 2017 (diff | hist) . . (0) . . Macs2
- 13:11, 7 July 2017 (diff | hist) . . (+2) . . CallSNPs.py
- 14:27, 6 July 2017 (diff | hist) . . (+414) . . JBrowse
- 13:50, 6 July 2017 (diff | hist) . . (+247) . . JBrowse
- 10:13, 6 July 2017 (diff | hist) . . (+42) . . N SWATH-MS Data Analysis (Created page with "= Introduction = = Links = * Pyprophet")
- 10:11, 6 July 2017 (diff | hist) . . (+47) . . Main Page
- 16:26, 4 July 2017 (diff | hist) . . (+13) . . RedHat
- 16:03, 4 July 2017 (diff | hist) . . (+287) . . RedHat
- 15:23, 4 July 2017 (diff | hist) . . (+581) . . SNP Analysis and phylogenetics (current)
- 14:47, 4 July 2017 (diff | hist) . . (+235) . . SNP Analysis and phylogenetics
- 14:35, 4 July 2017 (diff | hist) . . (+66) . . SNP Analysis and phylogenetics
- 14:19, 4 July 2017 (diff | hist) . . (+338) . . SNP Analysis and phylogenetics
- 14:10, 4 July 2017 (diff | hist) . . (+109) . . N SNP Analysis and phylogenetics (Created page with " = Links = == Andrew Rambaut = [https://groups.google.com/forum/#!topic/beast-users/V5vRghILMfw Says] that")
- 14:09, 4 July 2017 (diff | hist) . . (+37) . . Main Page
- 13:27, 29 June 2017 (diff | hist) . . (+253) . . Macs2
- 22:47, 28 June 2017 (diff | hist) . . (+1,904) . . Thor (current)
- 17:21, 21 June 2017 (diff | hist) . . (+1) . . Aspera (current)
- 17:21, 21 June 2017 (diff | hist) . . (+157) . . Aspera
- 17:13, 21 June 2017 (diff | hist) . . (+75) . . Aspera
- 15:13, 21 June 2017 (diff | hist) . . (+393) . . N Aspera (Created page with "= Introduction = It's probably the fastest way of downloading SRA files from the Short Read Archive. It's considerbaly faster than using ''''fastq-dump''' in its download mod...")
- 14:07, 21 June 2017 (diff | hist) . . (+14) . . Main Page
- 12:25, 21 June 2017 (diff | hist) . . (+92) . . JBrowse
- 17:48, 20 June 2017 (diff | hist) . . (+129) . . JBrowse
- 00:13, 19 June 2017 (diff | hist) . . (+1) . . Research Data Management (current)
- 23:05, 18 June 2017 (diff | hist) . . (+153) . . Research Data Management
- 15:36, 18 June 2017 (diff | hist) . . (+559) . . Research Data Management
- 15:08, 18 June 2017 (diff | hist) . . (+492) . . N Research Data Management (Created page with "= Introduction = The generation of genomic data has been expanding at ever-increasing rates whcih can result in a chaotic flood of datasets unless some discipline of Data Ama...")
- 15:04, 18 June 2017 (diff | hist) . . (+31) . . Main Page
- 16:14, 16 June 2017 (diff | hist) . . (+2,551) . . Thor
- 11:10, 16 June 2017 (diff | hist) . . (+67) . . JBrowse
- 10:53, 16 June 2017 (diff | hist) . . (+110) . . JBrowse
- 10:51, 16 June 2017 (diff | hist) . . (+187) . . JBrowse
- 10:26, 16 June 2017 (diff | hist) . . (+319) . . JBrowse
- 18:08, 15 June 2017 (diff | hist) . . (+534) . . N Bgenie (Created page with "= Introduction = bgen file processor from Jonathan Marchini = Usage = to load up the software: module load bgenie == typical use cases == (See the homepage n the Links...") (current)
- 17:51, 15 June 2017 (diff | hist) . . (+14) . . Main Page
- 15:06, 15 June 2017 (diff | hist) . . (+20) . . Main Page
- 15:05, 15 June 2017 (diff | hist) . . (+4,004) . . N KentUtils (Created page with "= Introduction = A myriad of bioinformatics tools from Jim Kent = The tools = addCols bedGraphToBigWig bigWigCorrelate chainStitchId faCmp...") (current)
- 14:45, 15 June 2017 (diff | hist) . . (0) . . Samtools (current)
- 14:45, 15 June 2017 (diff | hist) . . (+92) . . Samtools
- 13:22, 14 June 2017 (diff | hist) . . (+104) . . Deeptools (current)
- 13:20, 14 June 2017 (diff | hist) . . (+2,865) . . N Deeptools (Created page with "= Introduction = Deeptools is a python processing suite for bamfiles and renders them into genome browser track forms as such as bed and bigwig. It can be invoked in three w...")
- 13:12, 14 June 2017 (diff | hist) . . (+17) . . Main Page
- 16:32, 12 June 2017 (diff | hist) . . (+233) . . Bamtools (current)
- 14:27, 12 June 2017 (diff | hist) . . (-203) . . Bamtools
- 13:07, 12 June 2017 (diff | hist) . . (+8,922) . . N Bamtools (Created page with "= Introduction = The associated tool list is as follows: * convert * count * coverage * filter * header * index * merge * random * revert * sort * split * stats Introductio...")
- 12:59, 12 June 2017 (diff | hist) . . (+16) . . Main Page
- 11:01, 6 June 2017 (diff | hist) . . (+59) . . Thor
- 10:59, 6 June 2017 (diff | hist) . . (+1,660) . . Thor
- 10:21, 6 June 2017 (diff | hist) . . (+94) . . Thor
- 10:18, 6 June 2017 (diff | hist) . . (+2,081) . . Thor
- 17:15, 5 June 2017 (diff | hist) . . (-2,420) . . Macs2
- 17:12, 5 June 2017 (diff | hist) . . (+3,157) . . Macs2
- 17:05, 5 June 2017 (diff | hist) . . (+124) . . Macs2
- 16:54, 5 June 2017 (diff | hist) . . (0) . . Main Page
- 16:53, 5 June 2017 (diff | hist) . . (+43) . . Blat (current)
- 16:52, 5 June 2017 (diff | hist) . . (+768) . . N Blat (Created page with "= Introduction = BLAT is a tool from Jim Kent's stable at UCSD. In purpose it is very close to NCBI's BLAST, but it generally is easier in terms of switches and input options...")
- 16:42, 5 June 2017 (diff | hist) . . (+12) . . Main Page
- 16:23, 5 June 2017 (diff | hist) . . (+306) . . Thor
- 16:19, 5 June 2017 (diff | hist) . . (+462) . . Thor
- 14:33, 5 June 2017 (diff | hist) . . (+2,009) . . N Thor (Created page with "= Introduction = This is one of the newer Differential Peak callers from Costalab in Aachen. = Usage = == a first run == The first few runs are usually error-prone. Thor i...")
- 14:16, 5 June 2017 (diff | hist) . . (+12) . . Main Page
- 13:54, 5 June 2017 (diff | hist) . . (+50) . . m Macs2
- 11:53, 5 June 2017 (diff | hist) . . (+6,446) . . Macs2
- 09:49, 1 June 2017 (diff | hist) . . (0) . . ChIP-Seq Top2 peak-calling
- 16:41, 31 May 2017 (diff | hist) . . (+429) . . ChIP-Seq Top2 peak-calling
- 16:12, 30 May 2017 (diff | hist) . . (+173) . . Bwa (current)
- 15:29, 30 May 2017 (diff | hist) . . (-5) . . ChIP-Seq Top2 peak-calling
- 15:14, 30 May 2017 (diff | hist) . . (+2,521) . . ChIP-Seq Top2 peak-calling
- 14:55, 30 May 2017 (diff | hist) . . (0) . . ChIP-Seq Top2 peak-calling
- 14:54, 30 May 2017 (diff | hist) . . (+1,148) . . ChIP-Seq Top2 peak-calling
- 14:50, 30 May 2017 (diff | hist) . . (+194) . . N ChIP-Seq Top2 peak-calling (Created page with "= Introduction = = Raw data description = = Raw dataset quality analysis = Using FASTQC and them MultiQC. Results linked [http:stab.st-andrews.ac.uk/stab/top2/fastqc.html...")
- 14:29, 30 May 2017 (diff | hist) . . (+33) . . Main Page (→Pipelines)
- 17:49, 22 May 2017 (diff | hist) . . (+3,216) . . N Macs2 (Created page with "= Introduction = One of the main programs used for peak-calling on ChIP-Seq alignments. = Usage = == Help file == Here is the programs help file obtained with the command...")
- 17:45, 22 May 2017 (diff | hist) . . (+13) . . Main Page
- 15:09, 14 May 2017 (diff | hist) . . (+13) . . Quality of Mapping Exercise (current)
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