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some more replacements in notebook outputs
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@mschwoer
mschwoer committed Jul 17, 2024
1 parent d7dcad4 commit 9d30aa1
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Showing 4 changed files with 16 additions and 16 deletions.
8 changes: 4 additions & 4 deletions docs/nbs/library_reader.ipynb
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Expand Up @@ -2065,7 +2065,7 @@
" <td>4</td>\n",
" <td>2.957368</td>\n",
" <td>NaN</td>\n",
" <td>Dimethyl:2H(4)@Any N-term</td>\n",
" <td>Dimethyl:2H(4)@Any_N-term</td>\n",
" <td>0</td>\n",
" <td>9</td>\n",
" <td>0</td>\n",
Expand All @@ -2080,7 +2080,7 @@
" <td>3</td>\n",
" <td>10.904905</td>\n",
" <td>NaN</td>\n",
" <td>Dimethyl:2H(4)@Any N-term</td>\n",
" <td>Dimethyl:2H(4)@Any_N-term</td>\n",
" <td>0</td>\n",
" <td>7</td>\n",
" <td>8</td>\n",
Expand All @@ -2095,8 +2095,8 @@
],
"text/plain": [
" sequence charge rt mobility mods \\\n",
"0 EDTEEHHLR 4 2.957368 NaN Dimethyl:2H(4)@Any N-term \n",
"1 MQHLIAR 3 10.904905 NaN Dimethyl:2H(4)@Any N-term \n",
"0 EDTEEHHLR 4 2.957368 NaN Dimethyl:2H(4)@Any_N-term \n",
"1 MQHLIAR 3 10.904905 NaN Dimethyl:2H(4)@Any_N-term \n",
"\n",
" mod_sites nAA frag_start_idx frag_stop_idx rt_norm precursor_mz ccs \n",
"0 0 9 0 8 0.271196 300.150369 NaN \n",
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20 changes: 10 additions & 10 deletions nbs_tests/constants/modification.ipynb
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Expand Up @@ -156,8 +156,8 @@
" <td>0.0</td>\n",
" </tr>\n",
" <tr>\n",
" <th>Acetyl@Any N-term</th>\n",
" <td>Acetyl@Any N-term</td>\n",
" <th>Acetyl@Any_N-term</th>\n",
" <td>Acetyl@Any_N-term</td>\n",
" <td>42.010565</td>\n",
" <td>42.0367</td>\n",
" <td>H(2)C(2)O(1)</td>\n",
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" <td>0.0</td>\n",
" </tr>\n",
" <tr>\n",
" <th>Oxidation@G^Any C-term</th>\n",
" <td>Oxidation@G^Any C-term</td>\n",
" <th>Oxidation@G^Any_C-term</th>\n",
" <td>Oxidation@G^Any_C-term</td>\n",
" <td>15.994915</td>\n",
" <td>15.9994</td>\n",
" <td>O(1)</td>\n",
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"Acetyl@Y Acetyl@Y 42.010565 \n",
"Acetyl@R Acetyl@R 42.010565 \n",
"ICAT-G@C ICAT-G@C 486.251206 \n",
"Oxidation@G^Any C-term Oxidation@G^Any C-term 15.994915 \n",
"Oxidation@G^Any_C-term Oxidation@G^Any_C-term 15.994915 \n",
"Hex@C Hex@C 162.052824 \n",
"Hex@T Hex@T 162.052824 \n",
"Hex@N Hex@N 162.052824 \n",
Expand All @@ -733,7 +733,7 @@
"Acetyl@Y 42.0367 H(2)C(2)O(1) \n",
"Acetyl@R 42.0367 H(2)C(2)O(1) \n",
"ICAT-G@C 486.6253 H(38)C(22)N(4)O(6)S(1) \n",
"Oxidation@G^Any C-term 15.9994 O(1) \n",
"Oxidation@G^Any_C-term 15.9994 O(1) \n",
"Hex@C 162.1406 H(10)C(6)O(5) \n",
"Hex@T 162.1406 H(10)C(6)O(5) \n",
"Hex@N 162.1406 H(10)C(6)O(5) \n",
Expand All @@ -750,7 +750,7 @@
"Acetyl@Y 0.000000 \n",
"Acetyl@R 0.000000 \n",
"ICAT-G@C 0.000000 \n",
"Oxidation@G^Any C-term 0.000000 \n",
"Oxidation@G^Any_C-term 0.000000 \n",
"Hex@C 0.000000 \n",
"Hex@T 162.052824 H(10)C(6)O(5) \n",
"Hex@N 162.052824 H(10)C(6)O(5) \n",
Expand All @@ -767,7 +767,7 @@
"Acetyl@Y Chemical derivative 1 \n",
"Acetyl@R Artefact 1 \n",
"ICAT-G@C Isotopic label 8 \n",
"Oxidation@G^Any C-term Pre-translational 35 \n",
"Oxidation@G^Any_C-term Pre-translational 35 \n",
"Hex@C Other glycosylation 41 \n",
"Hex@T O-linked glycosylation 41 \n",
"Hex@N N-linked glycosylation 41 \n",
Expand All @@ -784,7 +784,7 @@
"Acetyl@Y 0.0 42.010565 \n",
"Acetyl@R 0.0 42.010565 \n",
"ICAT-G@C 0.0 486.251206 \n",
"Oxidation@G^Any C-term 0.0 15.994915 \n",
"Oxidation@G^Any_C-term 0.0 15.994915 \n",
"Hex@C 0.0 162.052823 \n",
"Hex@T 0.0 162.052823 \n",
"Hex@N 0.0 162.052823 \n",
Expand All @@ -801,7 +801,7 @@
"Acetyl@Y 0.000000 0.0 \n",
"Acetyl@R 0.000000 0.0 \n",
"ICAT-G@C 0.000000 0.0 \n",
"Oxidation@G^Any C-term 0.000000 0.0 \n",
"Oxidation@G^Any_C-term 0.000000 0.0 \n",
"Hex@C 0.000000 0.0 \n",
"Hex@T 162.052823 0.0 \n",
"Hex@N 162.052823 0.0 \n",
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2 changes: 1 addition & 1 deletion nbs_tests/psm_reader/alphapept_reader.ipynb
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Expand Up @@ -76,7 +76,7 @@
" 'Phospho@S': 'pS',\n",
" 'Phospho@T': 'pT',\n",
" 'Phospho@Y': 'pY',\n",
" 'Acetyl@Protein N-term': 'a'}"
" 'Acetyl@Protein_N-term': 'a'}"
]
},
"execution_count": null,
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2 changes: 1 addition & 1 deletion nbs_tests/psm_reader/maxquant_reader.ipynb
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Expand Up @@ -75,7 +75,7 @@
"text/plain": [
"{'Dimethyl@K': ['K(Dimethyl)'],\n",
" 'Dimethyl@R': ['R(Dimethyl)'],\n",
" 'Dimethyl@Any N-term': ['(Dimethyl)'],\n",
" 'Dimethyl@Any_N-term': ['(Dimethyl)'],\n",
" 'Acetyl@Protein_N-term': ['_(Acetyl (Protein_N-term))', '_(ac)'],\n",
" 'Carbamidomethyl@C': ['C(Carbamidomethyl (C))', 'C(Carbamidomethyl)'],\n",
" 'Oxidation@M': ['M(Oxidation)', 'M(Oxidation (M))', 'M(ox)'],\n",
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