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30 Open 48 Closed
30 Open 48 Closed
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Issues list

SamBuilder.add_single() cannot create a record without sequence or base qualities
#211 opened Jan 13, 2025 by msto
4
sum_of_base_qualities raises TypeError if the received record has no base qualities
#210 opened Jan 13, 2025 by msto
4
Consider more advanced views into the alignments in Template
#207 opened Dec 30, 2024 by clintval
Add a function to extract the sort order from an AlignmentHeader
#193 opened Nov 14, 2024 by msto
8
Drop support for Python 3.8 after EOL
#187 opened Sep 18, 2024 by msto
chore: remove the github-actions-ci environment
#180 opened Aug 15, 2024 by nh13
Metric.write should support alternate ordering of fields enhancement New feature or request
#177 opened Aug 14, 2024 by ameynert
1
Add a class/module method to read in a .dict file to a SequenceDictionary good first issue Good for newcomers help wanted Extra attention is needed
#176 opened Aug 12, 2024 by nh13
1
@TimD1
Should __get_item__() be reverted since it is confusing as to what the i-th entry of a Cigar is?
#169 opened Jul 20, 2024 by yfarjoun
1
inspect._get_parser() requires the now-deprecated typing.* collection types good first issue Good for newcomers
#143 opened Jun 12, 2024 by msto
1
Move code out of __init__.py and into {submodule}.py files
#136 opened Jun 12, 2024 by msto
7 tasks
Add require good first issue Good for newcomers
#132 opened Jun 6, 2024 by msto
1
Lock stdin/stdout so only one file handle may use either at a time
#131 opened Jun 6, 2024 by msto
Add code coverage report
#130 opened Jun 6, 2024 by msto
1
Use tox so we can test multiple python versions locally
#128 opened Jun 6, 2024 by msto
3
Add function(s) to set the 5' most alignment on a read as primary
#122 opened May 28, 2024 by msto
@msto
1
Metric should support comma-delimited files
#115 opened May 15, 2024 by msto
Metric should require decoration with dataclass or attr.s
#114 opened May 8, 2024 by msto
Consider renaming modules which shadow stdlib modules
#112 opened May 6, 2024 by msto
Add as_fastafile method to FastaBuilder good first issue Good for newcomers
#106 opened May 1, 2024 by msto
Metric wishlist
#104 opened Apr 17, 2024 by msto
2 of 6 tasks
4
Feature: SAM tag enum
#102 opened Mar 12, 2024 by msto
@msto
8
Metric.read should support PEP 604 syntax for Optional types enhancement New feature or request
#89 opened Feb 9, 2024 by msto
1
@nh13
Add a method to calculate MD and NM tags. enhancement New feature or request good first issue Good for newcomers
#84 opened Dec 22, 2023 by nh13
@emmcauley
Add a method on Template to fixmate information enhancement New feature or request
#83 opened Dec 22, 2023 by nh13
2
@TimD1
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