Comments (3)
Just figured this one out! From the README:
Other genome builds can also be used, but you need to make sure the SNP file and fasta file are from the same genome build. Also, you need to change hg19.fa in the run.sh to corresponding files.
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Hi @yjqiu
Does deltaSVM work with reference sequences for other species?
Thanks!
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@TaoHJiang I don't think so because the SELEX data is generated for human TFs and TFs from difference species may not share the same sequence specificities.
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Related Issues (11)
- Do deltaSVM support InDel predictions? HOT 1
- Contradictions in the effect direction between deltaSVM and QBiC-Pred HOT 1
- the resources files link is empty HOT 2
- SVM models missing HOT 9
- demo log shows q lot of wraning: : 'N' at (null)(19) is not a valid nucleotide. Only ACGT are allowed HOT 3
- Increase thread number from 1 to 16 makes program much slower HOT 2
- Run time for 1 million SNPs? HOT 2
- Interpert results for Gain HOT 1
- deltaSVM score HOT 2
- Meaning of "seq_binding" in deltaSVM output HOT 6
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