Ecosyste.ms: Issues

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GitHub / FredHutch/FAMLI issues and pull requests

#19 - Using Bowtie2 or other short-read mappers

Issue - State: open - Opened by MrOlm almost 4 years ago

#17 - famli filter raises an IndexError: list index out of range

Issue - State: closed - Opened by adriaaula almost 5 years ago - 4 comments

#16 - Use with paired end reads

Issue - State: closed - Opened by adriaaula about 5 years ago - 1 comment

#15 - Make into a Python package

Pull Request - State: closed - Opened by sminot over 6 years ago

#14 - Added a check in the culling code to skip unaligned queries

Pull Request - State: closed - Opened by jgolob over 6 years ago

#13 - Download SRA via Aspera

Issue - State: closed - Opened by sminot over 6 years ago - 2 comments
Labels: enhancement

#12 - Process batches

Pull Request - State: closed - Opened by sminot over 6 years ago

#11 - Record all run parameters in the output JSON

Issue - State: closed - Opened by sminot over 6 years ago - 1 comment
Labels: enhancement

#10 - Subcommand reorg

Pull Request - State: closed - Opened by sminot over 6 years ago - 1 comment

#9 - Quality trimming

Pull Request - State: closed - Opened by sminot over 6 years ago

#8 - New documentation

Pull Request - State: closed - Opened by sminot over 6 years ago

#7 - Update Readme

Issue - State: closed - Opened by sminot over 6 years ago - 1 comment
Labels: enhancement

#6 - Speed optimizations

Pull Request - State: closed - Opened by sminot over 6 years ago

#5 - Add percent identity

Issue - State: open - Opened by sminot over 6 years ago
Labels: enhancement

#4 - Refactor to list of alignments sorted

Pull Request - State: closed - Opened by sminot over 6 years ago - 1 comment

#3 - Only read once from the disk, keep alignments in a list

Pull Request - State: closed - Opened by sminot over 6 years ago

#2 - Update deduplication code

Pull Request - State: closed - Opened by sminot over 6 years ago

#1 - Switch to DIAMOND from Paladin

Pull Request - State: closed - Opened by sminot over 6 years ago