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Commits on Jan 16, 2025

• modified: mmap_malloc/mmap_allocator.c

  galaxy001

  committed
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Commits on Jan 15, 2025

• vector<uint32, galaxy::mmap_allocator<uint32>> countCellGeneUMI

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  galaxy001

  committed
  e6c4e48

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• Add source/mmap_malloc

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  galaxy001

  committed
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• Apply patches/0002-donotuse_own_htslib.patch

  galaxy001

  committed
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Commits on Feb 24, 2024

• When `soloOutFormatFeaturesGeneField3` is `+`, write GeneBiotype as FeaturesGeneField3.

  huxs001

  committed
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Commits on Jan 25, 2024

• 2.7.11b

  alexdobin

  committed
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• Ready for 2.7.11b

  alexdobin

  committed
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• Merge branch 'patch-1' of https://github.com/rcannood/STAR

  alexdobin

  committed
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Commits on Dec 22, 2023

• 2.7.11a_Diploid_TrSAMfix. Behavior change: replaced --quantTranscriptomeBan option with --quantTranscriptomeSAMoutput option. New option: --quantTranscriptomeSAMoutput BanSingleEnd_ExtendSoftclip :…

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  alexdobin

  committed
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Commits on Aug 15, 2023

• 2.7.11a

  alexdobin

  committed
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• Ready for 2.7.11a

  alexdobin

  committed
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Commits on Aug 8, 2023

• Preparing 2.7.11a

  alexdobin

  committed
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• Merged STARdiploid branch.

  alexdobin

  committed
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Commits on Jul 24, 2023

• Issue #1909: Fixed a bug causing wrong sequence length in the UB SAM tag for --soloType CB_UMI_Complex.

  alexdobin

  committed
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Commits on Jul 19, 2023

• 2.7.10b_alpha_2023-07-19. Finalized --soloCBtype String option for arbitrary cell barcode strings without passlist.

  alexdobin

  committed
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Commits on Jul 18, 2023

• Implemented option for arbitrary cell barcode strings without passlist.

  alexdobin

  committed
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Commits on Jul 6, 2023

• Added STARsolo BAM tag sF, which outputs the feature type and number of genes for each read.

  alexdobin

  committed
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Commits on Jun 20, 2023

• 2.7.10b_alpha_23-06-20: Fixed a GstrandBit issue for the on-the-fly insertion of extra genomic sequences.

  alexdobin

  committed
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Commits on Jun 9, 2023

• Updated CHANGES.

  alexdobin

  committed
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• 2.7.10b_alpha_23-06-09: Issue #1871: Fixed a bug which occurs when --soloCellReadStats Standard --twopassMode Basic are used together.

  alexdobin

  committed
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Commits on May 2, 2023

• Fixed haplotype tag (ha) for STARdiploid SAM/BAM output.

  alexdobin

  committed
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Commits on Mar 24, 2023

• Fixed issues with 2-pass and WASP for diploid genome mapping.

  alexdobin

  committed
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Commits on Mar 9, 2023

• Fixed primary flag for diploid transformation.

  alexdobin

  committed
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Commits on Mar 8, 2023

• Finalizing STARdiploid.

  alexdobin

  committed
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Commits on Mar 1, 2023

• 2.7.10b_alpha_230301: Issue #1763: Fixed a bug causing segnmentation fault in rare cases for 2-pass mapping.

  alexdobin

  committed
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Commits on Jan 11, 2023

• 2.7.10b_alpha_220111: Issue #1733: Fixed the issue with counting of intronicAS reads in STARsolo CellReads.stats output with --soloFeatures GeneFull_Ex50pAS option.

  alexdobin

  committed
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Commits on Dec 12, 2022

• fix more typos

  rcannood

  authored
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Commits on Nov 22, 2022

• fix typos and uniformise

  rcannood

  authored
  1d19930

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• further clean up file

  rcannood

  authored
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Commits on Nov 21, 2022

• standardise parameter format

  rcannood

  authored
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Commits on Nov 1, 2022

• 2.7.10b

  alexdobin

  committed
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Commits on Oct 20, 2022

• Ready for 2.7.10b

  alexdobin

  committed
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• Rearranged collapseUMIall().

  alexdobin

  committed
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• renamed: SoloFeature_collapseUMIall_multiMappers.cpp -> SoloFeature_collapseUMIall.cpp

  alexdobin

  committed
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Commits on Oct 19, 2022

• Reduced RAM usage for large STARsolo runs.

  alexdobin

  committed
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