Updated pipeline, added peak calling and other downstream analyses
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- README 0 additions, 12 deletionsREADME
- doc/README 15 additions, 14 deletionsdoc/README
- doc/config.json.README 60 additions, 25 deletionsdoc/config.json.README
- doc/old/201308_ATAC-seqProtocol_v5.pdf 0 additions, 0 deletionsdoc/old/201308_ATAC-seqProtocol_v5.pdf
- doc/old/2015-05-28-Processing_ATAC-seq_data.rtf 0 additions, 0 deletionsdoc/old/2015-05-28-Processing_ATAC-seq_data.rtf
- doc/old/20160127_ATAC seq_experimental design.docx 0 additions, 0 deletionsdoc/old/20160127_ATAC seq_experimental design.docx
- doc/old/Ablaufplan.odg 0 additions, 0 deletionsdoc/old/Ablaufplan.odg
- doc/old/Ablaufplan.pdf 0 additions, 0 deletionsdoc/old/Ablaufplan.pdf
- doc/old/Aging_and_epigenetics_JZ_MR.docx 0 additions, 0 deletionsdoc/old/Aging_and_epigenetics_JZ_MR.docx
- doc/old/Atacseq pipeline.rtf 0 additions, 0 deletionsdoc/old/Atacseq pipeline.rtf
- doc/old/BJ-DMSO-2h.trim.sort.nuc.uniq.rmdup.bam_insertsize.pdf 0 additions, 0 deletions...ld/BJ-DMSO-2h.trim.sort.nuc.uniq.rmdup.bam_insertsize.pdf
- doc/old/Ivan_Masterthesis_proposal.rtf 0 additions, 0 deletionsdoc/old/Ivan_Masterthesis_proposal.rtf
- doc/old/README 16 additions, 0 deletionsdoc/old/README
- doc/old/Ulli_data_pipeline.rtf 0 additions, 0 deletionsdoc/old/Ulli_data_pipeline.rtf
- doc/old/galaxy_101_tutorial_FASTQ_files.pdf 0 additions, 0 deletionsdoc/old/galaxy_101_tutorial_FASTQ_files.pdf
- doc/old/mb2129.pdf 0 additions, 0 deletionsdoc/old/mb2129.pdf
- doc/old/part2_ATAC-seq_pipeline.pdf 0 additions, 0 deletionsdoc/old/part2_ATAC-seq_pipeline.pdf
- example/input/cluster.json 3 additions, 3 deletionsexample/input/cluster.json
- example/input/config.json 16 additions, 3 deletionsexample/input/config.json
- example/input/generateExample.sh 9 additions, 0 deletionsexample/input/generateExample.sh
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