Combine or restructure the files guide_miairr_ncbi.rst, manual_miairr_ncbi.rst, specification_miairr_ncbi.rst

[ustervbo]

guide_miairr_ncbi.rst gives an overview that isn't really reflected in manual_miairr_ncbi.rst. For instance, Is Step 2 in manual_miairr_ncbi.rst corresponds to step 5 in guide_miairr_ncbi.rst, which is described in greater detail in specification_miairr_ncbi.rst.

Step 4 in guide_miairr_ncbi.rst is not described at all? Knowing zenodo I can guess what is meant, what is unclear is what do I do with the doi - not until I reach 'Record header' in specification_miairr_ncbi.rst.

[ustervbo]

Random observations I didn't know where else to put:

• D_segment is required for IgH, TRB, and TRD. What if the caller does not give the D segment back? In TRB is it very difficult to match because the germline sequence it is often very short
• C_region is required. However, this is largely unknown if the starting materials is DNA. It can be extrapolated from the J-region but a) it is work for the depositor with seemingly low benefit, and b) if there is no way to flag is as theoretical or similar, it may inflate the presence of the current consensus C-region sequences

[javh]

Both d_segment and c_region can be null (empty string), so required means the field needs to be present, but the user need not populate it if the data isn't available/relevant.

[ustervbo]

From the call: Rewrite from scratch. recommend to use GEO