Commits

Branch selector

 master

User selector

All users

Datepicker

All time

Commit History

Commits on Sep 4, 2025

• only trim to requested coverage on last iteration

  

  Sergey Koren

  committed
  fb43b3c

  Copy full SHA for fb43b3c

Commits on Aug 15, 2025

• bugfix

  

  Sergey Koren

  committed
  2a41e93

  Copy full SHA for 2a41e93

Commits on Aug 13, 2025

• allow multiple iterations of consensus/alignment

  

  Sergey Koren

  committed
  7d19e0b

  Copy full SHA for 7d19e0b

• cleanup and fixes for consensus changes

  

  Sergey Koren

  committed
  6854d09

  Copy full SHA for 6854d09

Commits on Jul 17, 2025

• fix stopping condition correctly

  

  Sergey Koren

  committed
  c0614d6

  Copy full SHA for c0614d6

• Revert "fix stopping conditions"

  Show description for aa6bd65
  

  Sergey Koren

  committed
  aa6bd65

  Copy full SHA for aa6bd65

• fix stopping conditions

  

  Sergey Koren

  committed
  53565a6

  Copy full SHA for 53565a6

Commits on Jul 16, 2025

• few more cns fixes

  

  Sergey Koren

  committed
  f9fa8de

  Copy full SHA for f9fa8de

Commits on Jul 14, 2025

• lots of consensus changes, mostly improving how the template is built and trying harder to respect provided positions, also align gaps to improve basecalling in simple sequence repeats

  

  Sergey Koren

  committed
  236a417

  Copy full SHA for 236a417

Commits on Jul 4, 2025

• update utility

  

  Sergey Koren

  committed
  b6f7a6c

  Copy full SHA for b6f7a6c

• parse ready copy count and output mapq using it when outputting bam

  

  Sergey Koren

  committed
  e6dbfe9

  Copy full SHA for e6dbfe9

• fix missing file close

  

  Sergey Koren

  committed
  2ef6fa3

  Copy full SHA for 2ef6fa3

• reduce memory usage

  

  Sergey Koren

  committed
  ca735a7

  Copy full SHA for ca735a7

Commits on May 7, 2025

• Pass through read name when layoutToPackage runs from seqstore

  

  Sergey Koren

  committed
  3c2099f

  Copy full SHA for 3c2099f

Commits on Apr 25, 2025

• store/parse library name in readNames.txt

  

  Sergey Koren

  committed
  a9c29bc

  Copy full SHA for a9c29bc

Commits on Apr 24, 2025

• Allow layoutToPackage to accept either raw files (loaded in memory) or seqstore (indexed on disk and lower mem usage)

  

  Sergey Koren

  committed
  4160344

  Copy full SHA for 4160344

• fix length check to be consistent with assert

  

  Sergey Koren

  committed
  8304bf1

  Copy full SHA for 8304bf1

Commits on Apr 11, 2025

• Add some very obsolete dev/bug notes, for archaeology.

  brianwalenz

  committed
  9cf1843

  Copy full SHA for 9cf1843

• Formatting and updates to compiling section.

  brianwalenz

  committed
  11a0852

  Copy full SHA for 11a0852

• Add EOL statement and Genome Research cover images.

  brianwalenz

  committed
  c000057

  Copy full SHA for c000057

Commits on Mar 28, 2025

• More conservative alignment when placing reads within a consensus, avoid force-placing chimeric reads

  

  Sergey Koren

  committed
  2cf9e8d

  Copy full SHA for 2cf9e8d

Commits on Feb 24, 2025

• update meryl-utility

  

  Sergey Koren

  committed
  1390384

  Copy full SHA for 1390384

Commits on Feb 21, 2025

• update meryl-utility

  

  Sergey Koren

  committed
  730205a

  Copy full SHA for 730205a

Commits on Feb 3, 2025

• Fix java use of command and default detection (issue #2359)

  

  Sergey Koren

  committed
  cebbe1d

  Copy full SHA for cebbe1d

• leave empty file in last folder to ensure it doesn't get cleaned up (issue #2363)

  

  Sergey Koren

  committed
  06160fa

  Copy full SHA for 06160fa

Commits on Jan 29, 2025

• Merge pull request #2364 from marbl/command-fix

  Show description for fe09a88
  

  Sergey Koren

  authored
  fe09a88

  Copy full SHA for fe09a88

Commits on Jan 28, 2025

• Replace 'command' with a perl-y version. Issue #2359.

  brianwalenz

  committed
  d5cfd2d

  Copy full SHA for d5cfd2d

Commits on Dec 19, 2024

• fix for reads w/lots of indels

  

  Sergey Koren

  committed
  8100bf4

  Copy full SHA for 8100bf4

Commits on Dec 14, 2024

• Bump version number to 2.3.

  brianwalenz

  committed
  1fc5b14

  Copy full SHA for 1fc5b14

• Update submodules.

  brianwalenz

  committed
  14dacca

  Copy full SHA for 14dacca

• Remove obsolete buildRelease.sh script; use the one in utility/scripts.

  brianwalenz

  committed
  b890846

  Copy full SHA for b890846

• Switch tgTig_class from a typedef enum to a forced-unsigned enum for compat with the bitfield it is used in.

  brianwalenz

  committed
  0084a10

  Copy full SHA for 0084a10

• Remove unused option to show read QV in multialign display.

  brianwalenz

  committed
  7434099

  Copy full SHA for 7434099

• Actually print the filename that failed to open, instead of crashing when printing.

  brianwalenz

  committed
  1246511

  Copy full SHA for 1246511

• Add support for MacOS statify.

  brianwalenz

  committed
  10e0c4c

  Copy full SHA for 10e0c4c

Pagination

Previous

Next