<commit_before>HGVS Railroad Diagram
^^^^^^^^^^^^^^^^^^^^^

  | Generated from `hgvs (https://github.com/biocommons/hgvs) <https://github.com/biocommons/hgvs>`_
  | 1b1f788ef473+ default tip
  | See the source code for the OMeta-based grammar

Variants
~~~~~~~~
.. image:: hgvs_railroad/c_variant.svg
  :align: center
.. image:: hgvs_railroad/g_variant.svg
  :align: center
.. image:: hgvs_railroad/hgvs_variant.svg
  :align: center
.. image:: hgvs_railroad/m_variant.svg
  :align: center
.. image:: hgvs_railroad/n_variant.svg
  :align: center
.. image:: hgvs_railroad/p_variant.svg
  :align: center
.. image:: hgvs_railroad/r_variant.svg
  :align: center


Intervals
~~~~~~~~~
.. image:: hgvs_railroad/c_interval.svg
  :align: center
.. image:: hgvs_railroad/def_c_interval.svg
  :align: center
.. image:: hgvs_railroad/def_g_interval.svg
  :align: center
.. image:: hgvs_railroad/def_m_interval.svg
  :align: center
.. image:: hgvs_railroad/def_n_interval.svg
  :align: center
.. image:: hgvs_railroad/def_p_interval.svg
  :align: center
.. image:: hgvs_railroad/def_r_interval.svg
  :align: center
.. image:: hgvs_railroad/g_interval.svg
  :align: center
.. image:: hgvs_railroad/m_interval.svg
  :align: center
.. image:: hgvs_railroad/n_interval.svg
  :align: center
.. image:: hgvs_railroad/p_interval.svg
  :align: center
.. image:: hgvs_railroad/r_interval.svg
  :align: center


Localized Edits
~~~~~~~~~~~~~~~
.. image:: hgvs_railroad/c_posedit.svg
  :align: center
.. image:: hgvs_railroad/c_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/g_posedit.svg
  :align: center
.. image:: hgvs_railroad/g_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/m_posedit.svg
  :align: center
.. image:: hgvs_railroad/m_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/n_posedit.svg
  :align: center
.. image:: hgvs_railroad/n_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/p_posedit_special.svg
  :align: center
.. image:: hgvs_railroad/p_posedit.svg
  :align: center
.. image:: hgvs_railroad/p_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/r_posedit.svg
  :align: center
.. image:: hgvs_railroad/r_typed_posedit.svg
  :align: center


Positions
~~~~~~~~~
.. image:: hgvs_railroad/c_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/c_pos.svg
  :align: center
.. image:: hgvs_railroad/def_c_pos.svg
  :align: center
.. image:: hgvs_railroad/def_g_pos.svg
  :align: center
.. image:: hgvs_railroad/def_m_pos.svg
  :align: center
.. image:: hgvs_railroad/def_n_pos.svg
  :align: center
.. image:: hgvs_railroad/def_p_pos.svg
  :align: center
.. image:: hgvs_railroad/def_r_pos.svg
  :align: center
.. image:: hgvs_railroad/g_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/g_pos.svg
  :align: center
.. image:: hgvs_railroad/hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/m_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/m_pos.svg
  :align: center
.. image:: hgvs_railroad/n_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/n_pos.svg
  :align: center
.. image:: hgvs_railroad/p_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/p_pos.svg
  :align: center
.. image:: hgvs_railroad/r_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/r_pos.svg
  :align: center


Edits (sequence changes)
~~~~~~~~~~~~~~~~~~~~~~~~
.. image:: hgvs_railroad/dna_copy.svg
  :align: center
.. image:: hgvs_railroad/dna_delins.svg
  :align: center
.. image:: hgvs_railroad/dna_del.svg
  :align: center
.. image:: hgvs_railroad/dna_dup.svg
  :align: center
.. image:: hgvs_railroad/dna_edit_mu.svg
  :align: center
.. image:: hgvs_railroad/dna_edit.svg
  :align: center
.. image:: hgvs_railroad/dna_ident.svg
  :align: center
.. image:: hgvs_railroad/dna_ins.svg
  :align: center
.. image:: hgvs_railroad/dna_inv.svg
  :align: center
.. image:: hgvs_railroad/dna_subst.svg
  :align: center
.. image:: hgvs_railroad/pro_delins.svg
  :align: center
.. image:: hgvs_railroad/pro_del.svg
  :align: center
.. image:: hgvs_railroad/pro_dup.svg
  :align: center
.. image:: hgvs_railroad/pro_edit_mu.svg
  :align: center
.. image:: hgvs_railroad/pro_edit.svg
  :align: center
.. image:: hgvs_railroad/pro_ident.svg
  :align: center
.. image:: hgvs_railroad/pro_ins.svg
  :align: center
.. image:: hgvs_railroad/pro_subst.svg
  :align: center
.. image:: hgvs_railroad/rna_delins.svg
  :align: center
.. image:: hgvs_railroad/rna_del.svg
  :align: center
.. image:: hgvs_railroad/rna_dup.svg
  :align: center
.. image:: hgvs_railroad/rna_edit_mu.svg
  :align: center
.. image:: hgvs_railroad/rna_edit.svg
  :align: center
.. image:: hgvs_railroad/rna_ident.svg
  :align: center
.. image:: hgvs_railroad/rna_ins.svg
  :align: center
.. image:: hgvs_railroad/rna_inv.svg
  :align: center
.. image:: hgvs_railroad/rna_subst.svg
  :align: center


Sequences
~~~~~~~~~
.. image:: hgvs_railroad/aa13_seq.svg
  :align: center
.. image:: hgvs_railroad/aa1_seq.svg
  :align: center
.. image:: hgvs_railroad/aa3_seq.svg
  :align: center
.. image:: hgvs_railroad/aat13_seq.svg
  :align: center
.. image:: hgvs_railroad/aat1_seq.svg
  :align: center
.. image:: hgvs_railroad/aat3_seq.svg
  :align: center
.. image:: hgvs_railroad/dna_seq.svg
  :align: center
.. image:: hgvs_railroad/rna_seq.svg
  :align: center


Residues
~~~~~~~~
.. image:: hgvs_railroad/aa13_ext.svg
  :align: center
.. image:: hgvs_railroad/aa13_fs.svg
  :align: center
.. image:: hgvs_railroad/aa13.svg
  :align: center
.. image:: hgvs_railroad/aa1.svg
  :align: center
.. image:: hgvs_railroad/aa3.svg
  :align: center
.. image:: hgvs_railroad/aat13.svg
  :align: center
.. image:: hgvs_railroad/aat1.svg
  :align: center
.. image:: hgvs_railroad/aat3.svg
  :align: center
.. image:: hgvs_railroad/dna_con.svg
  :align: center
.. image:: hgvs_railroad/dna_iupac.svg
  :align: center
.. image:: hgvs_railroad/dna.svg
  :align: center
.. image:: hgvs_railroad/rna_con.svg
  :align: center
.. image:: hgvs_railroad/rna_iupac.svg
  :align: center
.. image:: hgvs_railroad/rna.svg
  :align: center


Remaining rules
~~~~~~~~~~~~~~~
.. image:: hgvs_railroad/accn.svg
  :align: center
.. image:: hgvs_railroad/base.svg
  :align: center
.. image:: hgvs_railroad/ext.svg
  :align: center
.. image:: hgvs_railroad/fsext_offset.svg
  :align: center
.. image:: hgvs_railroad/fs.svg
  :align: center
.. image:: hgvs_railroad/na_iupac.svg
  :align: center
.. image:: hgvs_railroad/nnum.svg
  :align: center
.. image:: hgvs_railroad/num.svg
  :align: center
.. image:: hgvs_railroad/offset.svg
  :align: center
.. image:: hgvs_railroad/pm.svg
  :align: center
.. image:: hgvs_railroad/pro_ext.svg
  :align: center
.. image:: hgvs_railroad/pro_fs.svg
  :align: center
.. image:: hgvs_railroad/snum.svg
  :align: center
.. image:: hgvs_railroad/term13.svg
  :align: center
.. image:: hgvs_railroad/term1.svg
  :align: center
.. image:: hgvs_railroad/term3.svg
  :align: center


<commit_msg>Re-order Variants and Position diagrams (#533)<commit_after>HGVS Railroad Diagram
^^^^^^^^^^^^^^^^^^^^^

  | Generated from `hgvs (https://github.com/biocommons/hgvs) <https://github.com/biocommons/hgvs>`_
  | 1b1f788ef473+ default tip
  | See the source code for the OMeta-based grammar

Variants
~~~~~~~~
.. image:: hgvs_railroad/hgvs_variant.svg
  :align: center
.. image:: hgvs_railroad/g_variant.svg
  :align: center
.. image:: hgvs_railroad/m_variant.svg
  :align: center
.. image:: hgvs_railroad/c_variant.svg
  :align: center
.. image:: hgvs_railroad/n_variant.svg
  :align: center
.. image:: hgvs_railroad/r_variant.svg
  :align: center
.. image:: hgvs_railroad/p_variant.svg
  :align: center


Intervals
~~~~~~~~~
.. image:: hgvs_railroad/c_interval.svg
  :align: center
.. image:: hgvs_railroad/def_c_interval.svg
  :align: center
.. image:: hgvs_railroad/def_g_interval.svg
  :align: center
.. image:: hgvs_railroad/def_m_interval.svg
  :align: center
.. image:: hgvs_railroad/def_n_interval.svg
  :align: center
.. image:: hgvs_railroad/def_p_interval.svg
  :align: center
.. image:: hgvs_railroad/def_r_interval.svg
  :align: center
.. image:: hgvs_railroad/g_interval.svg
  :align: center
.. image:: hgvs_railroad/m_interval.svg
  :align: center
.. image:: hgvs_railroad/n_interval.svg
  :align: center
.. image:: hgvs_railroad/p_interval.svg
  :align: center
.. image:: hgvs_railroad/r_interval.svg
  :align: center


Localized Edits
~~~~~~~~~~~~~~~
.. image:: hgvs_railroad/c_posedit.svg
  :align: center
.. image:: hgvs_railroad/c_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/g_posedit.svg
  :align: center
.. image:: hgvs_railroad/g_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/m_posedit.svg
  :align: center
.. image:: hgvs_railroad/m_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/n_posedit.svg
  :align: center
.. image:: hgvs_railroad/n_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/p_posedit_special.svg
  :align: center
.. image:: hgvs_railroad/p_posedit.svg
  :align: center
.. image:: hgvs_railroad/p_typed_posedit.svg
  :align: center
.. image:: hgvs_railroad/r_posedit.svg
  :align: center
.. image:: hgvs_railroad/r_typed_posedit.svg
  :align: center


Positions
~~~~~~~~~
.. image:: hgvs_railroad/hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/c_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/c_pos.svg
  :align: center
.. image:: hgvs_railroad/def_c_pos.svg
  :align: center
.. image:: hgvs_railroad/g_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/g_pos.svg
  :align: center
.. image:: hgvs_railroad/def_g_pos.svg
  :align: center
.. image:: hgvs_railroad/m_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/m_pos.svg
  :align: center
.. image:: hgvs_railroad/def_m_pos.svg
  :align: center
.. image:: hgvs_railroad/n_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/n_pos.svg
  :align: center
.. image:: hgvs_railroad/def_n_pos.svg
  :align: center
.. image:: hgvs_railroad/p_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/p_pos.svg
  :align: center
.. image:: hgvs_railroad/def_p_pos.svg
  :align: center
.. image:: hgvs_railroad/r_hgvs_position.svg
  :align: center
.. image:: hgvs_railroad/r_pos.svg
  :align: center
.. image:: hgvs_railroad/def_r_pos.svg
  :align: center


Edits (sequence changes)
~~~~~~~~~~~~~~~~~~~~~~~~
.. image:: hgvs_railroad/dna_copy.svg
  :align: center
.. image:: hgvs_railroad/dna_delins.svg
  :align: center
.. image:: hgvs_railroad/dna_del.svg
  :align: center
.. image:: hgvs_railroad/dna_dup.svg
  :align: center
.. image:: hgvs_railroad/dna_edit_mu.svg
  :align: center
.. image:: hgvs_railroad/dna_edit.svg
  :align: center
.. image:: hgvs_railroad/dna_ident.svg
  :align: center
.. image:: hgvs_railroad/dna_ins.svg
  :align: center
.. image:: hgvs_railroad/dna_inv.svg
  :align: center
.. image:: hgvs_railroad/dna_subst.svg
  :align: center
.. image:: hgvs_railroad/pro_delins.svg
  :align: center
.. image:: hgvs_railroad/pro_del.svg
  :align: center
.. image:: hgvs_railroad/pro_dup.svg
  :align: center
.. image:: hgvs_railroad/pro_edit_mu.svg
  :align: center
.. image:: hgvs_railroad/pro_edit.svg
  :align: center
.. image:: hgvs_railroad/pro_ident.svg
  :align: center
.. image:: hgvs_railroad/pro_ins.svg
  :align: center
.. image:: hgvs_railroad/pro_subst.svg
  :align: center
.. image:: hgvs_railroad/rna_delins.svg
  :align: center
.. image:: hgvs_railroad/rna_del.svg
  :align: center
.. image:: hgvs_railroad/rna_dup.svg
  :align: center
.. image:: hgvs_railroad/rna_edit_mu.svg
  :align: center
.. image:: hgvs_railroad/rna_edit.svg
  :align: center
.. image:: hgvs_railroad/rna_ident.svg
  :align: center
.. image:: hgvs_railroad/rna_ins.svg
  :align: center
.. image:: hgvs_railroad/rna_inv.svg
  :align: center
.. image:: hgvs_railroad/rna_subst.svg
  :align: center


Sequences
~~~~~~~~~
.. image:: hgvs_railroad/aa13_seq.svg
  :align: center
.. image:: hgvs_railroad/aa1_seq.svg
  :align: center
.. image:: hgvs_railroad/aa3_seq.svg
  :align: center
.. image:: hgvs_railroad/aat13_seq.svg
  :align: center
.. image:: hgvs_railroad/aat1_seq.svg
  :align: center
.. image:: hgvs_railroad/aat3_seq.svg
  :align: center
.. image:: hgvs_railroad/dna_seq.svg
  :align: center
.. image:: hgvs_railroad/rna_seq.svg
  :align: center


Residues
~~~~~~~~
.. image:: hgvs_railroad/aa13_ext.svg
  :align: center
.. image:: hgvs_railroad/aa13_fs.svg
  :align: center
.. image:: hgvs_railroad/aa13.svg
  :align: center
.. image:: hgvs_railroad/aa1.svg
  :align: center
.. image:: hgvs_railroad/aa3.svg
  :align: center
.. image:: hgvs_railroad/aat13.svg
  :align: center
.. image:: hgvs_railroad/aat1.svg
  :align: center
.. image:: hgvs_railroad/aat3.svg
  :align: center
.. image:: hgvs_railroad/dna_con.svg
  :align: center
.. image:: hgvs_railroad/dna_iupac.svg
  :align: center
.. image:: hgvs_railroad/dna.svg
  :align: center
.. image:: hgvs_railroad/rna_con.svg
  :align: center
.. image:: hgvs_railroad/rna_iupac.svg
  :align: center
.. image:: hgvs_railroad/rna.svg
  :align: center


Remaining rules
~~~~~~~~~~~~~~~
.. image:: hgvs_railroad/accn.svg
  :align: center
.. image:: hgvs_railroad/base.svg
  :align: center
.. image:: hgvs_railroad/ext.svg
  :align: center
.. image:: hgvs_railroad/fsext_offset.svg
  :align: center
.. image:: hgvs_railroad/fs.svg
  :align: center
.. image:: hgvs_railroad/na_iupac.svg
  :align: center
.. image:: hgvs_railroad/nnum.svg
  :align: center
.. image:: hgvs_railroad/num.svg
  :align: center
.. image:: hgvs_railroad/offset.svg
  :align: center
.. image:: hgvs_railroad/pm.svg
  :align: center
.. image:: hgvs_railroad/pro_ext.svg
  :align: center
.. image:: hgvs_railroad/pro_fs.svg
  :align: center
.. image:: hgvs_railroad/snum.svg
  :align: center
.. image:: hgvs_railroad/term13.svg
  :align: center
.. image:: hgvs_railroad/term1.svg
  :align: center
.. image:: hgvs_railroad/term3.svg
  :align: center



{'fraction_non_alphanumeric': 0.15476447321107514, 'fraction_numerical': 0.004818410643653362, 'mean_word_length': 4.121915285451197, 'pattern_counts': {'":': 0, '<': 5, '<?xml version=': 0, '>': 5, 'https://': 4, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '4187579', 'n_tokens_mistral': 5939, 'n_tokens_neox': 5640, 'n_words': 995}