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docs(findings): ITS2 measured -- the k-mer screen is 43.9% of b_compare Concordance (vs R DADA2) #357: Commit e1adec6 pushed by cjfields
2m 58s feat/minimizer-screen
feat/minimizer-screen
2m 58s
docs(findings): ITS2 is the screen-dominated case, and shows read-ret… Concordance (vs R DADA2) #356: Commit f1fae8f pushed by cjfields
3m 7s feat/minimizer-screen
feat/minimizer-screen
3m 7s
feat(sweep): full pooling (POOL=true) end to end Concordance (vs R DADA2) #355: Commit 3856850 pushed by cjfields
3m 4s feat/minimizer-screen
feat/minimizer-screen
3m 4s
dev(sweep): ERRFUN_ARGS passthrough for errfuns that need a companion… Concordance (vs R DADA2) #354: Commit e1b8c40 pushed by cjfields
3m 26s feat/minimizer-screen
feat/minimizer-screen
3m 26s
dev(sweep): make errfun configurable and hold it fixed across arms Concordance (vs R DADA2) #353: Commit d4915e7 pushed by cjfields
1m 32s feat/minimizer-screen
feat/minimizer-screen
1m 32s
docs+dev: withdraw the length-normalisation rationale -- the mechanis… Concordance (vs R DADA2) #352: Commit 651f5d6 pushed by cjfields
3m 6s feat/minimizer-screen
feat/minimizer-screen
3m 6s
fix(sweep): phase-split block -- wrong array name, and -o with multip… Concordance (vs R DADA2) #351: Commit fe1dbe9 pushed by cjfields
3m 31s feat/minimizer-screen
feat/minimizer-screen
3m 31s
dev(sweep): capture the screen/align phase split, not just wall clock Concordance (vs R DADA2) #350: Commit 5c1cf8f pushed by cjfields
1m 51s feat/minimizer-screen
feat/minimizer-screen
1m 51s
dev+docs: check the length precondition, and weaken the ITS2 rationale Concordance (vs R DADA2) #349: Commit 8dae61a pushed by cjfields
2m 58s feat/minimizer-screen
feat/minimizer-screen
2m 58s
dev+docs: distinguish a distorted count matrix from a merely perturbe… Concordance (vs R DADA2) #348: Commit 9ee91aa pushed by cjfields
2m 59s feat/minimizer-screen
feat/minimizer-screen
2m 59s
docs(findings): the full Illumina cutoff curve, with timings Concordance (vs R DADA2) #347: Commit a15b3da pushed by cjfields
3m 14s feat/minimizer-screen
feat/minimizer-screen
3m 14s
feat(sweep): PREFILTERED mode for externally-prepared amplicons (ITS2) Concordance (vs R DADA2) #346: Commit 24d5d02 pushed by cjfields
2m 58s feat/minimizer-screen
feat/minimizer-screen
2m 58s
docs(findings): calibration brackets, only a sweep decides Concordance (vs R DADA2) #345: Commit 5ee9a17 pushed by cjfields
3m 9s feat/minimizer-screen
feat/minimizer-screen
3m 9s
fix(analyze-kdist): the max is unusable at scale; use quantiles and m… Concordance (vs R DADA2) #344: Commit 6b74a7e pushed by cjfields
2m 59s feat/minimizer-screen
feat/minimizer-screen
2m 59s
docs(findings): a mis-set screen moves reads, it does not lose ASVs Concordance (vs R DADA2) #343: Commit 35fdcaf pushed by cjfields
3m 0s feat/minimizer-screen
feat/minimizer-screen
3m 0s
fix(screen-sweep): shared error model, wider grid, and stop dying on … Concordance (vs R DADA2) #342: Commit 3ac2eb7 pushed by cjfields
3m 10s feat/minimizer-screen
feat/minimizer-screen
3m 10s
docs(findings): full 362-sample MiSeq grid -- Illumina must trade acc… Concordance (vs R DADA2) #341: Commit 36483e6 pushed by cjfields
3m 10s feat/minimizer-screen
feat/minimizer-screen
3m 10s
dev(analyze-kdist): stream the curve, do not load it Concordance (vs R DADA2) #340: Commit 242cf14 pushed by cjfields
3m 2s feat/minimizer-screen
feat/minimizer-screen
3m 2s
dev: bundle a screen-sweep run into something worth copying Concordance (vs R DADA2) #339: Commit bd7facc pushed by cjfields
3m 11s feat/minimizer-screen
feat/minimizer-screen
3m 11s
docs(findings): retract the wall-clock and confounded-alignment claims Concordance (vs R DADA2) #338: Commit 1c8473a pushed by cjfields
3m 3s feat/minimizer-screen
feat/minimizer-screen
3m 3s
dev: PacBio screen sweep, entering at derep on pre-filtered reads Concordance (vs R DADA2) #337: Commit d4b5716 pushed by cjfields
3m 14s feat/minimizer-screen
feat/minimizer-screen
3m 14s
docs(findings): PacBio control channel is bit-identical Concordance (vs R DADA2) #336: Commit 17e7703 pushed by cjfields
3m 12s feat/minimizer-screen
feat/minimizer-screen
3m 12s
docs(findings): --nbases 1e8 is inside the sample-composition noise f… Concordance (vs R DADA2) #335: Commit a3767b9 pushed by cjfields
3m 5s feat/minimizer-screen
feat/minimizer-screen
3m 5s
docs(findings): PacBio is ASV-identical at 13.3% fewer alignments Concordance (vs R DADA2) #334: Commit b22c399 pushed by cjfields
3m 9s feat/minimizer-screen
feat/minimizer-screen
3m 9s
dev(nbases-ladder): reject an obviously mixed R1/R2 input set Concordance (vs R DADA2) #333: Commit 99f4980 pushed by cjfields
3m 5s feat/minimizer-screen
feat/minimizer-screen
3m 5s