elm2meme [options] <ELM file>+
Reads a tab separated quoted values file containing ELM regular expressions and convert them to MEME motifs where possible.
Reads ELM entries from the listed files.
ELM entries describe a motif as a regular expression. Not all can be converted into MEME motifs due to anchors or variable length.
#"Accession" "ELMIdentifier" "Description" "Regex" "Probability" "#Instances" "#Instances_in_PDB" "ELME000321" "CLV_C14_Caspase3-7" "Caspase-3 and Caspase-7 cleavage site." "[DSTE][^P][^DEWHFYC]D[GSAN]" "0.00309374033071" "39" "0" "ELME000172" "CLV_MEL_PAP_1" "Prophenoloxidase-activating proteinase (PAP) cleavage site ([ILV]-X-X-R-|-[FV]-[GS]-X)." "[ILV]..R[VF][GS]." "0.000105375572148" "12" "0" "ELME000102" "CLV_NRD_NRD_1" "N-Arg dibasic convertase (NRD/Nardilysin) cleavage site (X-|-R-K or R-|-R-X)." "(.RK)|(RR[^KR])" "0.00746473248158" "2" "0" "ELME000101" "CLV_PCSK_FUR_1" "Furin (PACE) cleavage site (R-X-[RK]-R-|-X)." "R.[RK]R." "0.000508722921034" "13" "0" "ELME000108" "CLV_PCSK_KEX2_1" "Yeast kexin 2 cleavage site (K-R-|-X or R-R-|-X)." "[KR]R." "0.007973463544" "1" "0"
Option | Parameter | Description | Default Behaviour |
---|---|---|---|
General Options | |||
-h | Prints a usage message and exits. | The program runs as normal. |