Ecosyste.ms: Issues

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GitHub / fulcrumgenomics/fqgrep issues and pull requests

#36 - feat: support protein sequences

Pull Request - State: open - Opened by nh13 about 1 month ago

#35 - ci: migrate ubuntu-latest to ubuntu-24.04

Pull Request - State: closed - Opened by nh13 about 2 months ago

#34 - Create pacbiohifiread.sh

Pull Request - State: closed - Opened by sablokgaurav 10 months ago - 1 comment

#33 - Updated command-line usage

Pull Request - State: open - Opened by kockan over 1 year ago - 1 comment

#32 - Proper command-line usage for fqgrep

Issue - State: open - Opened by kockan over 1 year ago - 2 comments

#31 - Feat: Add zstd support

Pull Request - State: open - Opened by kockan over 1 year ago

#30 - Support for outputting two FASTQs (R1/R2)

Pull Request - State: open - Opened by nh13 over 1 year ago

#29 - Support output to two files when operating in paired mode

Issue - State: open - Opened by tfenne over 1 year ago - 3 comments
Labels: enhancement, help wanted

#28 - Fix "Mismatching read pair!" error when the read name matches but the…

Pull Request - State: closed - Opened by nh13 over 1 year ago

#27 - feat: support searching IUPAC codes

Pull Request - State: open - Opened by nh13 over 1 year ago

#26 - Speed up string matching

Issue - State: open - Opened by nh13 over 1 year ago

#25 - Support IUPAC codes

Issue - State: open - Opened by nh13 over 1 year ago - 1 comment

#24 - Fix publishing of static binaries

Pull Request - State: closed - Opened by nh13 almost 2 years ago - 5 comments

#23 - Add to paired end test data

Pull Request - State: closed - Opened by SheaML almost 2 years ago

#22 - fix out of order output in process_paired_reads

Pull Request - State: closed - Opened by SheaML almost 2 years ago - 2 comments

#21 - Provide staticly-linked binary?

Issue - State: closed - Opened by shenwei356 about 2 years ago - 7 comments
Labels: bug

#20 - Support zst compressed fastq

Issue - State: open - Opened by yesimon about 2 years ago - 1 comment
Labels: help wanted

#19 - Investigate possible race condition in `fqgrep`

Issue - State: open - Opened by nh13 about 2 years ago
Labels: bug

#18 - Tests for main.rs, mod.rs, and matcher.rs

Pull Request - State: closed - Opened by sam-white04 about 2 years ago

#17 - Added standard pre-commit script that runs formatting, clippy and tests.

Pull Request - State: open - Opened by tfenne about 2 years ago - 2 comments

#16 - Tests fqgrep

Pull Request - State: closed - Opened by sam-white04 about 2 years ago - 1 comment

#15 - Add a rust-toolchain file.

Pull Request - State: closed - Opened by tfenne over 2 years ago

#14 - program name

Issue - State: closed - Opened by darked89 over 2 years ago - 1 comment

#13 - Make fqgrep more grep-like in its options

Pull Request - State: closed - Opened by nh13 over 2 years ago - 8 comments

#12 - feat(pretty_progress_logger): uses commas to delimit large numbers

Pull Request - State: closed - Opened by sstadick over 2 years ago

#11 - allow queries to come from file

Issue - State: closed - Opened by goertzenlr over 2 years ago - 4 comments

#10 - feat(progress-logger): added a progress logger

Pull Request - State: closed - Opened by sstadick over 2 years ago

#9 - Provide offsets into the read to explicitly search

Issue - State: closed - Opened by nh13 over 2 years ago - 1 comment

#8 - Skip searching the reverse complement

Issue - State: closed - Opened by nh13 over 2 years ago - 1 comment

#7 - Make R2 optional

Issue - State: closed - Opened by nh13 over 2 years ago - 3 comments

#6 - Make ref-sequence optional

Issue - State: closed - Opened by nh13 over 2 years ago - 1 comment

#5 - Add bioconda to README

Pull Request - State: closed - Opened by nh13 over 2 years ago

#4 - Add authors to cargo toml

Pull Request - State: closed - Opened by nh13 over 2 years ago

#3 - A number of small improvements

Pull Request - State: closed - Opened by nh13 over 2 years ago

#2 - Log progress

Issue - State: closed - Opened by nh13 over 3 years ago - 5 comments

#1 - Search both the forward and revcomp of the ref and alt

Pull Request - State: closed - Opened by nh13 over 3 years ago