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renamed simulation-related scripts

This commit is contained in:
Heng Li 2017-08-07 13:26:25 -04:00
parent 1597f2b030
commit bd1541dce1
4 changed files with 3 additions and 7 deletions
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misc/README.md
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@ -13,16 +13,12 @@ page][k8bin].
non-redundant mapped bases, number of split and secondary alignments and non-redundant mapped bases, number of split and secondary alignments and
number of long gaps. This scripts seamlessly works with both SAM and PAF. number of long gaps. This scripts seamlessly works with both SAM and PAF.
* [pbsim2fa.js](pbsim2fa.js): convert reads simulated with [PBSIM][pbsim] to * [sim-pbsim.js](sim-pbsim.js): convert reads simulated with [PBSIM][pbsim] to
FASTA and encode the true mapping positions to read names in a format like FASTA and encode the true mapping positions to read names in a format like
`S1_33!chr1!225258409!225267761!-`. `S1_33!chr1!225258409!225267761!-`.
* [pbsim-eval.js](pbsim-eval.js): evaluate mapping accuracy for FASTA generated * [sim-eval.js](sim-eval.js): evaluate mapping accuracy for FASTA generated
with [pbsim2fa.js](pbsim2fa.js). This script only works with PAF. For SAM, with [sim-pbsim.js](sim-pbsim.js) or [sim-mason2.js](sim-mason2.js).
please convert to PAF first:
```sh
k8 sam2paf.js -p aln.sam | k8 pbsim-eval.js /dev/stdin
```
* [sam2paf.js](sam2paf.js): convert SAM to PAF. * [sam2paf.js](sam2paf.js): convert SAM to PAF.

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misc/pbsim-eval.js → misc/sim-eval.js
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misc/mason2fq.js → misc/sim-mason2.js
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misc/pbsim2fa.js → misc/sim-pbsim.js
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