Description of the headers obtained from the Eligos2 output
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megha.hs28 ▴ 10
@meghahs28-23948
Last seen 2.8 years ago
India

Dear Community members,

I have got the below columns after running the Eligos2 rna_mod pipeline. (https://doi.org/10.1093/nar/gkaa620)

| chrom | start_loc | end_loc | strand | name | ref | homo_seq | kmer5 | majorAllel | majorAllelFreq | kmer7 | test_err_1 | model_err_1 | test_cor_1 | model_cor_1 | oddR | pval | adjPval | baseExt | total_reads | ESB_test | ESB_ctrl |

Kindly let me know the description the above columns and their significance. Thank you in advance

Regards, Dr.Megha H.S

methylation RNA native epitranscriptomics • 958 views
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tcalvo ▴ 100
@tcalvo-12466
Last seen 18 months ago
Brazil

Dear Megha. Since Eligos2 is not a Bioconductor package, you may have better luck trying Biostars instead. Still, some of these names are clearly based on genome coordinates and sequence names (first 7 fields). Then, some genetics descriptions, like major allele (most frequent), its frequency (major allele freq). adjPVal, a nominal P-value adjusted for multiple testing from the pval. OddR, odds ratio.

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