Commits

Breadcrumbs

History for

onmaster

User selector

All users

Datepicker

All time

Commit History

Commits on Mar 14, 2019

• Also reset end point if alignment region is too small at the start of the tig. Issue marbl#1280.

  brianwalenz

  committed
  90dd526

  Copy full SHA for 90dd526

• Minor fixes to logging.

  brianwalenz

  committed
  57fa5eb

  Copy full SHA for 57fa5eb

Commits on Mar 12, 2019

• Don't reset the bgn coordinate unless we're at the end of the tig. Issue marbl#1252.

  brianwalenz

  committed
  3c725fa

  Copy full SHA for 3c725fa

• Stick a guard in getSequence(), finally.

  brianwalenz

  committed
  220a4ba

  Copy full SHA for 220a4ba

Commits on Mar 11, 2019

• Shift the region to align to when it is truncated by the end of the contig. Issue marbl#1252.

  brianwalenz

  committed
  db3be58

  Copy full SHA for db3be58

• Don't replace N's in overlapping regions when the read fails to align. Issue marbl#1252.

  brianwalenz

  committed
  ea52416

  Copy full SHA for ea52416

Commits on Feb 8, 2019

• Disable reporting of bits used to store alignment.

  brianwalenz

  committed
  f66b90b

  Copy full SHA for f66b90b

Commits on Jan 31, 2019

• Don't try to find coordinates for reads that aren't used in generating the consensus. Issue marbl#1225, maybe.

  brianwalenz

  committed
  490b517

  Copy full SHA for 490b517

Commits on Jan 17, 2019

• Store read-to-tig alignments in tgStore, fix (but not fully) multialignment output.

  brianwalenz

  committed
  a6871e4

  Copy full SHA for a6871e4

• Set the recomputed min/max positions in the tgTig output, too.

  brianwalenz

  committed
  dc94228

  Copy full SHA for dc94228

• Fix memory leak: not releasing read bases/quals.

  brianwalenz

  committed
  634b051

  Copy full SHA for 634b051

Commits on Jan 3, 2019

• Update derived-from text in copyright blurb.

  brianwalenz

  committed
  b838597

  Copy full SHA for b838597

• Keep track of the shift in read position to compute better initial placements during realignment.

  brianwalenz

  committed
  5fcc24b

  Copy full SHA for 5fcc24b

Commits on Dec 17, 2018

• Add option -norealign to turn off read realignment. Issue marbl#1159.

  brianwalenz

  committed
  f6b8d4e

  Copy full SHA for f6b8d4e

• Update command line error handling to use vector<char*>. Add -VVVV support.

  brianwalenz

  committed
  598f8b5

  Copy full SHA for 598f8b5

Commits on Dec 4, 2018

• Align reads back to consensus to find their true location.

  brianwalenz

  committed
  7db5967

  Copy full SHA for 7db5967

• Update command line usage for -quick: no BAM output.

  brianwalenz

  committed
  a587f70

  Copy full SHA for a587f70

Commits on Nov 16, 2018

• Rearrange, cleanup a bit.

  brianwalenz

  committed
  5449222

  Copy full SHA for 5449222

Commits on Nov 15, 2018

• Move unitigConsensus.C out of the libcns/ directory.

  brianwalenz

  committed
  3b80cda

  Copy full SHA for 3b80cda

• Remove original 'abacus' consensus algorithm.

  brianwalenz

  committed
  efc928c

  Copy full SHA for efc928c

• Fix log reporting which read bases are used when the read fails to align to the template.

  brianwalenz

  committed
  9312614

  Copy full SHA for 9312614

Commits on Nov 9, 2018

• Fix failure when no alignment can be found, presumably because of N's in the read(s). Issue marbl#1142.

  brianwalenz

  committed
  ceda4d6

  Copy full SHA for ceda4d6

• For tigs loaded via import, write the layout and read sequences to <input>.layout and <input>.fasta.

  brianwalenz

  committed
  71c8011

  Copy full SHA for 71c8011

Commits on Oct 22, 2018

• Update copyright info.

  brianwalenz

  committed
  fcc3fe1

  Copy full SHA for fcc3fe1

Commits on Oct 17, 2018

• Slightly fix screen logging, especially for import/export.

  brianwalenz

  committed
  1d4b836

  Copy full SHA for 1d4b836

Commits on Sep 17, 2018

• Fix error in error message.

  brianwalenz

  committed
  f724fb8

  Copy full SHA for f724fb8

Commits on Aug 30, 2018

• Properly fix truncated consensus bug, without introducing lots of indels as the previous fix did

  skoren

  committed
  e42d54d

  Copy full SHA for e42d54d

Commits on Aug 1, 2018

• Fix bug which was truncating some large contigs

  skoren

  committed
  9341a0c

  Copy full SHA for 9341a0c

Commits on Jul 21, 2018

• Fold reverse-complementing into 'sequence' library.

  brianwalenz

  committed
  1674b22

  Copy full SHA for 1674b22

• Collect all string processing classes/functions into strings.H.

  brianwalenz

  committed
  8076733

  Copy full SHA for 8076733

• Remover dependency on libkmer's kMer object.

  brianwalenz

  committed
  a876555

  Copy full SHA for a876555

Commits on Jul 20, 2018

• Make utility/files.H and utility/strings.H.

  brianwalenz

  committed
  ce12198

  Copy full SHA for ce12198

• Rename 'AS_UTL/' to 'utility/'.

  brianwalenz

  committed
  fb95293

  Copy full SHA for fb95293

Commits on Apr 30, 2018

• Fix minor logging annoyances.

  brianwalenz

  committed
  0b8fc3a

  Copy full SHA for 0b8fc3a

Commits on Apr 28, 2018

• Reimplement the utgcns 'package' support, now called import/export, and add it to falconsense.

  brianwalenz

  committed
  72744bc

  Copy full SHA for 72744bc

Pagination

Previous

Next