deletions | additions
diff --git a/ipynb/Array-systematic-writing.ipynb b/ipynb/Array-systematic-writing.ipynb
index 7cf8795..171ccef 100644
--- a/ipynb/Array-systematic-writing.ipynb
+++ b/ipynb/Array-systematic-writing.ipynb
...
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"input": [
"!wc -l
./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.2M_Hyper_3plusAdjactentProbes.gff\n" ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.*\n"
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"language": "python",
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./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.2M_Hyper_3plusAdjactentProbes.gff\r\n" ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.2M_Hyper_3plusAdjactentProbes.gff\r\n",
" 310 ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.2M_Hypo_3plusAdjactentProbes.gff\r\n",
" 31 ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.4M_Hyper_3plusAdjactentProbes.gff\r\n",
" 127 ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.4M_Hypo_3plusAdjactentProbes.gff\r\n",
" 18 ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.6M_Hyper_3plusAdjactentProbes.gff\r\n",
" 108 ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.6M_Hypo_3plusAdjactentProbes.gff\r\n",
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"!wc -l ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.2M_Hypo_3plusAdjactentProbes.gff\n", "%%bash\n",
"for f in ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.*\n",
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...
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"./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.2M_Hyper_3plusAdjactentProbes.gff\n",
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310 ./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.2M_Hypo_3plusAdjactentProbes.gff\r\n" 4\n",
"./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.2M_Hypo_3plusAdjactentProbes.gff\n",
" 108\n",
"./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.4M_Hyper_3plusAdjactentProbes.gff\n",
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"./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.4M_Hypo_3plusAdjactentProbes.gff\n",
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"./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.6M_Hyper_3plusAdjactentProbes.gff\n",
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"./data/2014.07.02.colson/genomeBrowserTracks/threeOrMoreAdjacentSigProbes/2014.07.02.6M_Hypo_3plusAdjactentProbes.gff\n",
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diff --git a/results-array.md b/results-array.md
index 807b540..2c7e365 100644
--- a/results-array.md
+++ b/results-array.md
...
#results-array
In direct comparison of methylation for an individual oyster prior to and following heat shock approximately 10k differentially methylated features were identified. For all oysters a majority of the features were hypomethylated. Specifically, for oysters #2, #4, and #6 the number of hypomethylated features was 7224, 6560, and 7645, respectively.
When only features were considered where at least 3 adjacent probes were also differentially methylated the number of features (merged) for oysters #2, #4, and #6 was 112, 58, and 62, respectively. A majority of these features were hypomethylated (108, 48, and 53, respectively)
Oyster | Hypo-probes | Hyper-probes | Hypo-3plus-merged | Hypo-3plus-merged
--- | --- | --- | --- | ---
2 | 7224 | 2803 | 108 | 4
4 | 6560 | 3587 | 48 | 10
6 | 7645 | 4044 | 53 | 9
In order to examine regions that were differentially methylated across all three oysters features were identified where there were at least 3 adjacent probes with signficantly differentially methylated. A total of 111 features were identified as hypomethylated and 54 features as hypermethylated when differentially methylated probe with 100bp were merged.
