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Commits on Aug 25, 2017

• various minor improvements

  lh3

  committed
  2641613

• added spliced alignment example

  lh3

  committed
  5f96d85

• Release minimap2-2.1-r311

  lh3

  committed
  bf8246f

• test data for spliced alignment

  lh3

  committed
  5cbd776

• r309: improved SAM header output

  lh3

  committed
  0fe1a22

Commits on Aug 24, 2017

• backup manuscript

  lh3

  committed
  240f6ca

Commits on Aug 22, 2017

• backup

  lh3

  committed
  b8bdac7

Commits on Aug 20, 2017

• backup

  lh3

  committed
  19e4b2a

• evaluate introns

  Show description for ce859db
  lh3

  committed
  ce859db

• the final version

  Show description for a4c41f6
  lh3

  committed
  a4c41f6

Commits on Aug 19, 2017

• minor tuning to the matching rules

  lh3

  committed
  5ed2faf

Commits on Aug 18, 2017

• moved appendix to methods; detailed splice aln

  lh3

  committed
  8058c85

• r301: separate introns from deletions

  Show description for 993a2bb
  lh3

  committed
  993a2bb

Commits on Aug 17, 2017

• Merge branch 'master' into splice

  lh3

  committed
  64c1389

• r299: support -h: output to stdout; return 0

  lh3

  committed
  81cff97

• support inserting RG lines

  lh3

  committed
  bbb37d9

• r297: bidirectional RNA alignment

  lh3

  committed
  2cde8d2

Commits on Aug 14, 2017

• r296: expose splicing related options to CLI

  lh3

  committed
  b5f5929

Commits on Aug 13, 2017

• r295: gap closure from the middle of non-HPC k

  Show description for 28f8668
  lh3

  committed
  28f8668

• backup: preliminary boundary alignment

  lh3

  committed
  43506ed

Commits on Aug 12, 2017

• minor formatting changes

  lh3

  committed
  bcfe00d

• exts2 working

  lh3

  committed
  17c19e5

• separate out spliced alignment; not right yet

  lh3

  committed
  61eef05

• r290: in techrep, explain spliced alignment

  lh3

  committed
  53b3265

• r289: changed CLI help only

  lh3

  committed
  a23df2d

• r288: changed max intron length to 200k

  lh3

  committed
  5a74088

• r287: refined CLI options and manpage

  lh3

  committed
  d240318

• r286: ignore introns when computing max seg score

  lh3

  committed
  0f4c823

• option to print all exons for debugging

  lh3

  committed
  2d11aaa

Commits on Aug 11, 2017

• option to print correct exons

  lh3

  committed
  30b8cb4

• bugfix; print errors; better rules

  lh3

  committed
  0c1760b

• r282: reduced intron cost; added eval script

  lh3

  committed
  a99358b

Commits on Aug 10, 2017

• r281: don't open long gaps on query

  lh3

  committed
  163fa36

Commits on Aug 9, 2017

• r280: output introns as "N" in the cdna mode

  lh3

  committed
  c59b078

• Merge branch 'master' into cdna

  lh3

  committed
  7429b12

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