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@@ -36,6 +36,17 @@ Note that this strategy is currently only available for `hg19`, `hg38`, `mm9` an
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Although CALDER was mainly tested on human and mouse dataset, it can be applied on dataset from other genomes. One additional information is required in such case: a `feature_track` that is presumably positively correlated with compartment score (thus higher values in A than in B compartment). This information will be used for correctly determing the `A/B` direction. Some suggested tracks are gene density, H3K27ac, H3K4me1, H3K4me2, H3K4me3, H3K36me3 (or negative transform of H3K9me3) signals. Note that this information will not alter the hierarchical compartment/TAD structure, and can come from any external study with matched genome.
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+ 16050000 16050000 10106.306
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+ 16050000 16060000 2259.247
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+ 16060000 16060000 7748.551
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+ 16050000 16070000 1251.3663
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+ 16060000 16070000 4456.1245
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+ 16070000 16070000 4211.7393
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+ 16050000 16080000 522.0705
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+ 16060000 16080000 983.1761
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+ 16070000 16080000 1996.749
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# Installation
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## Make sure all dependencies have been installed:
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Yuanlong LIU