chore(master): release 1.0.0 - Githubissues

kircherlab / MPRAsnakeflow

new implementation of MPRAsnakeflow fork of MPRAflow

MIT License

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chore(master): release 1.0.0 #114

Closed github-actions[bot] closed 2 months ago

github-actions[bot] commented 2 months ago

:robot: I have created a release beep boop

1.0.0 (2024-09-13)

⚠ BREAKING CHANGES

pseudocounts where not used correctly when RNA or DNA set to 0
DNA and RNA join correction
pseudocounts where not used correctly when RNA or DNA set to 0
see previous PR
correct join in counts!

Features

Add assignment_merge thread configuration (26e68c2)
add formatters (e589376)
better assignment BC statistics (00187e6)
configurable min mapping quality (28045ae)
extending figure width (8bf81c4)
faster design check (315b402)
fastq-join implementation (aaf5315)
fewer print mesaaages in BCCounts (a1dc242)
fewer print mesaaages in BCCounts (c689b5b)
make filtering consistent (5f7a4c5)
master variant table (6bda47c)
new final output file with merged replicates (66cf017)
only link assignment fasta when possible (d7d3822), closes #50
realease please (62b0787)
remove space, speedup BC extraction (70e9bd0)
replace merging by NGmerge (0aa8cad)
snakemake 8 compatibility (cf38ed9)
snakemake 8 ready with workflow profile (d637e1f)
statistic for assignment workflow (10c3b26)
using reverese compelment BCs (d009a6c)

Bug Fixes

batch size issue in sort (487ba8c)
correct join in counts! (40b1ecb)
correct use of assignment configs (58b64f1)
corrected qc_report_assoc (afb0127)
DNA and RNA join correction (7214743)
filter config (38ee37e)
issue with stats and asisgnment (d935fa1)
master branch instead of main (a7c2453)
missing final_counts_umi_samplerer in cluster conf (283c271)
missing final_counts_umi_samplerer in cluster conf (8871dcd)
plots per insert only used last experiment. not all. (c2fd82b)
pseudocounts where not used correctly when RNA or DNA set to 0 (d2483f9)
pseudocounts where not used correctly when RNA or DNA set to 0 (2ab3c62)
remove illegal characters from reference (0ebee81)
rename barcoe output header (635f043)
rule make_master_tables fix (df42845)
SCRIPTS_DIR changed from common.smk (f459f83)
SCRIPTS_DIR changed from common.smk (2ceeac7)
see previous PR (2c891e4)
set master branch (5dbd8e6)
statistic total counts (6381b92)
typo in report (ace8cca)
upgrade code to new pandas version (aaea236)
using correct threads (6dcad7d)
using multiple fastq inputs in counts (95935cf)

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