Difference between revisions of "ChIP-Seq Top2 in Yeast"
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The MACS2 program takes care of duplicates so samples were only trimmed for adapters and quality. | The MACS2 program takes care of duplicates so samples were only trimmed for adapters and quality. | ||
| − | |||
| − | == First Experiment == | + | = Alignment to the S288C Reference = |
| + | |||
| + | == Bam quality == | ||
| + | |||
| + | === First Experiment === | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULSIP_E1_cad1tro_srtd_bamqc.html ULS1_IP_E1] | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULSINP_E1_cad1tro_srtd_bamqc.html ULS1_INP_E1] | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/WTIP_E1_cad1tro_srtd_bamqc.html WT_IP_E1] | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/WTINP_E1_cad1tro_srtd_bamqc.html WT_INP_E1] | ||
| + | |||
| + | === Second Experiment === | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULS1_IP_cad1_srtd_bamqc.html ULS1_IP_E2] | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULS1_INP_cad1_srtd_bamqc.html ULS1_INP_E2] | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/WT_T2_IP_cad1_srtd_bamqc.html WT_T2_IP_E2] | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/WT_T2_INP_cad1_srtd_bamqc.html WT_T2_INP_E2] | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULS1_T2_IP_cad1_srtd_bamqc.html ULS1_T2_IP_E2] | ||
| + | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULS1_T2_INP_cad1_srtd_bamqc.html ULS1_T2_INP_E2] | ||
| + | |||
| + | = Alignment to the new W303 Reference = | ||
| + | |||
| + | == Bam quality == | ||
| + | |||
| + | === First Experiment === | ||
* [http://stab.st-andrews.ac.uk/top2/bamquals0/ULSIP_E1_cad1tro_srtd_bamqc.html ULS1_IP_E1] | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULSIP_E1_cad1tro_srtd_bamqc.html ULS1_IP_E1] | ||
* [http://stab.st-andrews.ac.uk/top2/bamquals0/ULSINP_E1_cad1tro_srtd_bamqc.html ULS1_INP_E1] | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULSINP_E1_cad1tro_srtd_bamqc.html ULS1_INP_E1] | ||
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* [http://stab.st-andrews.ac.uk/top2/bamquals0/WTINP_E1_cad1tro_srtd_bamqc.html WT_INP_E1] | * [http://stab.st-andrews.ac.uk/top2/bamquals0/WTINP_E1_cad1tro_srtd_bamqc.html WT_INP_E1] | ||
| − | == Second Experiment == | + | === Second Experiment === |
* [http://stab.st-andrews.ac.uk/top2/bamquals0/ULS1_IP_cad1_srtd_bamqc.html ULS1_IP_E2] | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULS1_IP_cad1_srtd_bamqc.html ULS1_IP_E2] | ||
* [http://stab.st-andrews.ac.uk/top2/bamquals0/ULS1_INP_cad1_srtd_bamqc.html ULS1_INP_E2] | * [http://stab.st-andrews.ac.uk/top2/bamquals0/ULS1_INP_cad1_srtd_bamqc.html ULS1_INP_E2] | ||
Revision as of 14:40, 7 August 2017
Contents
Introduction
This wiki page combines the two sequencing experiments of ChIP-Seq on yeast samples udring June / July 2017.
Sample quality
The MACS2 program takes care of duplicates so samples were only trimmed for adapters and quality.
