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Pull requests: rnabioco/raer

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Pull requests list

Reformat with air
#123 by jayhesselberth was merged Mar 8, 2025 Loading…
Reformat with air
#122 by jayhesselberth was closed Mar 8, 2025 Loading…
use txdbmaker package for makeTxDb... functions
#119 by kriemo was merged Mar 13, 2024 Loading…
fix errors in ss2 reporting
#118 by kriemo was merged Mar 8, 2024 Loading…
fix R stack imbalance
#116 by kriemo was merged Jan 23, 2024 Loading…
avoid possible memory issue when building index.
#115 by kriemo was merged Dec 18, 2023 Loading…
Bioc updates
#113 by kriemo was merged Oct 16, 2023 Loading…
use tempdir() properly...
#112 by kriemo was merged Oct 13, 2023 Loading…
1
Vignette and bioc updates
#110 by kriemo was merged Sep 21, 2023 Loading…
1
Fix memory leaks reported by valgrind
#109 by kriemo was merged Sep 15, 2023 Loading…
remove the output file options from pileup_sites()
#108 by kriemo was merged Sep 5, 2023 Loading…
modularize
#107 by kriemo was merged Sep 1, 2023 Loading…
drop genomic-unstranded option
#106 by kriemo was merged Aug 28, 2023 Loading…
standardize fasta arg
#105 by kriemo was merged Aug 21, 2023 Loading…
single cell AEI functionality
#103 by kriemo was merged Aug 7, 2023 Loading…
1
Consensus base counting for pileup_cells
#102 by kriemo was merged Jul 21, 2023 Loading…
allow pileup_cells to process multiple alleles per site
#101 by kriemo was merged Jul 12, 2023 Loading…
additional utilities
#100 by kriemo was merged Jul 7, 2023 Loading…
respect min_depth and min_variant_reads
#99 by kriemo was merged Jul 6, 2023 Loading…
support BamFile and BamFileList classes as inputs
#96 by kriemo was merged Jun 21, 2023 Loading…
updates for de related functions
#95 by kriemo was merged Jun 5, 2023 Loading…
calc_aei improvements
#94 by kriemo was merged May 30, 2023 Loading…
rework rownames to be consistent between pileup_cells and pileup_sites.
#93 by kriemo was merged May 24, 2023 Loading…
update tests and catch some warnings
#92 by kriemo was merged Mar 18, 2023 Loading…
Additional site statistics to examine strand-bias and confidence
#91 by kriemo was merged Mar 10, 2023 Loading…
1
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