diff options
| -rw-r--r-- | NOTES.org | 137 |
1 files changed, 66 insertions, 71 deletions
@@ -48,22 +48,17 @@ Continue to mutate for 10 rounds, though not all 10 of your sequences will survi | STOP | TAA TGA TAG | #+name: aa-table-to-form -#+begin_src elisp :var table-name="amino-acid-to-codon" range="@<<$<..@>$>" :results verbatim - (let ((raw-data (org-table-get-remote-range table-name range))) - (seq-reduce (lambda (acc elt) - (set-text-properties 0 (length elt) nil elt) - (if (or (not acc) (cdar acc)) - (cons (list elt) acc) - (cons (cons (caar acc) (split-string elt)) (cdr acc)))) - raw-data - nil)) +#+begin_src elisp :var raw-data=amino-acid-to-codon range="@<<$<..@>$>" :results verbatim + (mapcar (lambda (kvp) + (cons (car kvp) (split-string (cadr kvp)))) + raw-data) #+end_src #+RESULTS: aa-table-to-form -: (("STOP" "TAA" "TGA" "TAG") ("Val" "GTT" "GTC" "GTA" "GTG") ("Tyr" "TAT" "TAC") ("Trp" "TGG") ("Thr" "ACT" "ACC" "ACA" "ACG") ("Ser" "TCT" "TCC" "TCA" "TCG" "AGT" "AGC") ("Pro" "CCT" "CCC" "CCA" "CCG") ("Phe" "TTT" "TTC") ("Met" "ATG") ("Lys" "AAA" "AAG") ("Leu" "CTT" "CTC" "CTA" "CTG" "TTA" "TTG") ("Ile" "ATT" "ATC" "ATA") ("His" "CAT" "CAC") ("Gly" "GGT" "GGC" "GGA" "GGG") ("Glu" "GAA" "GAG") ("Gln" "CAA" "CAG") ("Cys" "TGT" "TGC") ("Asp" "GAT" "GAC") ("Asn" "AAT" "AAC") ("Arg" "CGT" "CGC" "CGA" "CGG" "AGA" "AGG") ("Ala" "GCT" "GCC" "GCA" "GCG")) +: (("Ala" "GCT" "GCC" "GCA" "GCG") ("Arg" "CGT" "CGC" "CGA" "CGG" "AGA" "AGG") ("Asn" "AAT" "AAC") ("Asp" "GAT" "GAC") ("Cys" "TGT" "TGC") ("Gln" "CAA" "CAG") ("Glu" "GAA" "GAG") ("Gly" "GGT" "GGC" "GGA" "GGG") ("His" "CAT" "CAC") ("Ile" "ATT" "ATC" "ATA") ("Leu" "CTT" "CTC" "CTA" "CTG" "TTA" "TTG") ("Lys" "AAA" "AAG") ("Met" "ATG") ("Phe" "TTT" "TTC") ("Pro" "CCT" "CCC" "CCA" "CCG") ("Ser" "TCT" "TCC" "TCA" "TCG" "AGT" "AGC") ("Thr" "ACT" "ACC" "ACA" "ACG") ("Trp" "TGG") ("Tyr" "TAT" "TAC") ("Val" "GTT" "GTC" "GTA" "GTG") ("STOP" "TAA" "TGA" "TAG")) #+name: aa-table-inverted -#+begin_src elisp :var table-name="amino-acid-to-codon" range="@<<$<..@>$>" +#+begin_src elisp :var raw-data=amino-acid-to-codon range="@<<$<..@>$>" (let ((codon-alist (mapcar (lambda (aa-to-codons) (cons (cdr aa-to-codons) (car aa-to-codons))) <<aa-table-to-form>>))) (apply 'append @@ -75,10 +70,10 @@ Continue to mutate for 10 rounds, though not all 10 of your sequences will survi #+end_src #+RESULTS: aa-table-inverted -: ((TAA . STOP) (TGA . STOP) (TAG . STOP) (GTT . Val) (GTC . Val) (GTA . Val) (GTG . Val) (TAT . Tyr) (TAC . Tyr) (TGG . Trp) (ACT . Thr) (ACC . Thr) (ACA . Thr) (ACG . Thr) (TCT . Ser) (TCC . Ser) (TCA . Ser) (TCG . Ser) (AGT . Ser) (AGC . Ser) (CCT . Pro) (CCC . Pro) (CCA . Pro) (CCG . Pro) (TTT . Phe) (TTC . Phe) (ATG . Met) (AAA . Lys) (AAG . Lys) (CTT . Leu) (CTC . Leu) (CTA . Leu) (CTG . Leu) (TTA . Leu) (TTG . Leu) (ATT . Ile) (ATC . Ile) (ATA . Ile) (CAT . His) (CAC . His) (GGT . Gly) (GGC . Gly) (GGA . Gly) (GGG . Gly) (GAA . Glu) (GAG . Glu) (CAA . Gln) (CAG . Gln) (TGT . Cys) (TGC . Cys) (GAT . Asp) (GAC . Asp) (AAT . Asn) (AAC . Asn) (CGT . Arg) (CGC . Arg) (CGA . Arg) (CGG . Arg) (AGA . Arg) (AGG . Arg) (GCT . Ala) (GCC . Ala) (GCA . Ala) (GCG . Ala)) +: ((GCT . Ala) (GCC . Ala) (GCA . Ala) (GCG . Ala) (CGT . Arg) (CGC . Arg) (CGA . Arg) (CGG . Arg) (AGA . Arg) (AGG . Arg) (AAT . Asn) (AAC . Asn) (GAT . Asp) (GAC . Asp) (TGT . Cys) (TGC . Cys) (CAA . Gln) (CAG . Gln) (GAA . Glu) (GAG . Glu) (GGT . Gly) (GGC . Gly) (GGA . Gly) (GGG . Gly) (CAT . His) (CAC . His) (ATT . Ile) (ATC . Ile) (ATA . Ile) (CTT . Leu) (CTC . Leu) (CTA . Leu) (CTG . Leu) (TTA . Leu) (TTG . Leu) (AAA . Lys) (AAG . Lys) (ATG . Met) (TTT . Phe) (TTC . Phe) (CCT . Pro) (CCC . Pro) (CCA . Pro) (CCG . Pro) (TCT . Ser) (TCC . Ser) (TCA . Ser) (TCG . Ser) (AGT . Ser) (AGC . Ser) (ACT . Thr) (ACC . Thr) (ACA . Thr) (ACG . Thr) (TGG . Trp) (TAT . Tyr) (TAC . Tyr) (GTT . Val) (GTC . Val) (GTA . Val) (GTG . Val) (TAA . STOP) (TGA . STOP) (TAG . STOP)) #+name: tbl-to-json -#+begin_src elisp :var table-name="amino-acid-to-codon" range="@<<$<..@>$>" +#+begin_src elisp :var raw-data=amino-acid-to-codon range="@<<$<..@>$>" (let ((json-map (mapcar (lambda (kvp) (format "'%s': '%s'," (car kvp) (cdr kvp))) <<aa-table-inverted>>))) (format "{\n%s\n}" (string-join json-map "\n"))) @@ -87,70 +82,70 @@ Continue to mutate for 10 rounds, though not all 10 of your sequences will survi #+RESULTS: tbl-to-json #+begin_example { - 'TAA': 'STOP', - 'TGA': 'STOP', - 'TAG': 'STOP', - 'GTT': 'Val', - 'GTC': 'Val', - 'GTA': 'Val', - 'GTG': 'Val', - 'TAT': 'Tyr', - 'TAC': 'Tyr', - 'TGG': 'Trp', - 'ACT': 'Thr', - 'ACC': 'Thr', - 'ACA': 'Thr', - 'ACG': 'Thr', - 'TCT': 'Ser', - 'TCC': 'Ser', - 'TCA': 'Ser', - 'TCG': 'Ser', - 'AGT': 'Ser', - 'AGC': 'Ser', - 'CCT': 'Pro', - 'CCC': 'Pro', - 'CCA': 'Pro', - 'CCG': 'Pro', - 'TTT': 'Phe', - 'TTC': 'Phe', - 'ATG': 'Met', - 'AAA': 'Lys', - 'AAG': 'Lys', - 'CTT': 'Leu', - 'CTC': 'Leu', - 'CTA': 'Leu', - 'CTG': 'Leu', - 'TTA': 'Leu', - 'TTG': 'Leu', - 'ATT': 'Ile', - 'ATC': 'Ile', - 'ATA': 'Ile', - 'CAT': 'His', - 'CAC': 'His', - 'GGT': 'Gly', - 'GGC': 'Gly', - 'GGA': 'Gly', - 'GGG': 'Gly', - 'GAA': 'Glu', - 'GAG': 'Glu', - 'CAA': 'Gln', - 'CAG': 'Gln', - 'TGT': 'Cys', - 'TGC': 'Cys', - 'GAT': 'Asp', - 'GAC': 'Asp', - 'AAT': 'Asn', - 'AAC': 'Asn', + 'GCT': 'Ala', + 'GCC': 'Ala', + 'GCA': 'Ala', + 'GCG': 'Ala', 'CGT': 'Arg', 'CGC': 'Arg', 'CGA': 'Arg', 'CGG': 'Arg', 'AGA': 'Arg', 'AGG': 'Arg', - 'GCT': 'Ala', - 'GCC': 'Ala', - 'GCA': 'Ala', - 'GCG': 'Ala', + 'AAT': 'Asn', + 'AAC': 'Asn', + 'GAT': 'Asp', + 'GAC': 'Asp', + 'TGT': 'Cys', + 'TGC': 'Cys', + 'CAA': 'Gln', + 'CAG': 'Gln', + 'GAA': 'Glu', + 'GAG': 'Glu', + 'GGT': 'Gly', + 'GGC': 'Gly', + 'GGA': 'Gly', + 'GGG': 'Gly', + 'CAT': 'His', + 'CAC': 'His', + 'ATT': 'Ile', + 'ATC': 'Ile', + 'ATA': 'Ile', + 'CTT': 'Leu', + 'CTC': 'Leu', + 'CTA': 'Leu', + 'CTG': 'Leu', + 'TTA': 'Leu', + 'TTG': 'Leu', + 'AAA': 'Lys', + 'AAG': 'Lys', + 'ATG': 'Met', + 'TTT': 'Phe', + 'TTC': 'Phe', + 'CCT': 'Pro', + 'CCC': 'Pro', + 'CCA': 'Pro', + 'CCG': 'Pro', + 'TCT': 'Ser', + 'TCC': 'Ser', + 'TCA': 'Ser', + 'TCG': 'Ser', + 'AGT': 'Ser', + 'AGC': 'Ser', + 'ACT': 'Thr', + 'ACC': 'Thr', + 'ACA': 'Thr', + 'ACG': 'Thr', + 'TGG': 'Trp', + 'TAT': 'Tyr', + 'TAC': 'Tyr', + 'GTT': 'Val', + 'GTC': 'Val', + 'GTA': 'Val', + 'GTG': 'Val', + 'TAA': 'STOP', + 'TGA': 'STOP', + 'TAG': 'STOP', } #+end_example |