ALIGNRECORDS.PY(1)

📖 Okay bestie, this is the ALIGNRECORDS.PY(1) page 💖 It lives in the User Commands manual section, so it's the stuff you actually run from your terminal 🧚

✨ NAME ✨

AlignRecords.py is a Repertoire clonal assignment toolkit (Python 3) 🦋

✨ DESCRIPTION ✨

Here's the usage line, verbatim:

usage: AlignRecords.py [--version] [-h]  ...

The whole point is that it does multiple alignment of sequence fields 🌸 Lowkey iconic.

🎀 help:

• --version — shows the program's version number and then exits 💅
• -h, --help — shows the help message and exits 🫶

👑 subcommands:

Here's the alignment method menu, and yes, each one uses MUSCLE 🔥

• across — multiple aligns sequence columns within groups and across rows using MUSCLE.
• within — multiple aligns sequence fields within rows using MUSCLE.
• block — multiple aligns sequence groups across both columns and rows using MUSCLE.

📦 output files:

Two databases come out the other end 💜

• align-pass — a database with multiple aligned sequences ✨
• align-fail — a database with records that failed alignment 💀

🧚 required fields:

These fields are required, no exceptions:

• sequence_id, v_call, j_call <field> — the sequence fields you pick to align, specified by you 🍓

🌈 output fields:

• <field>_align 🦋

✨ AUTHOR ✨

This manpage was written by Nilesh Patra for the Debian distribution. It's also free to use for any other usage of the program, periodt 🫶

Shoutout to AlignRecords.py 1.0.1 from October 2020 for the whole glow-up ✨🎀 Bye bestie 💅💖