Commit 741f0557 authored by Mathieu Giraud's avatar Mathieu Giraud

tests: more chimera sequences, +V/-J and -V/+J

parent 8d25f556
!LAUNCH: ../../vidjil -A -g ../../germline -i -2 ../../data/chimera-fake-VJ.fa
$ The KmerSegmenter segments the three chimera reads on PSEUDO_MAX12 germline (-2)
1:xxx .* -> .* 3
$ The KmerSegmenter segments the five chimera reads on PSEUDO_MAX12 germline (-2)
1:xxx .* -> .* 5
$ The FineSegmenter correclty segments the three sequences (-2)
1:IGKV1-12.01 0//0 IGLJ1.01
1:TRBV1.01 0//0 TRGJ1.01
1:TRDV1.01 0//0 IGHJ1.01
$ The FineSegmenter correclty segments the two sequences with either V or J reversed (-2)
1:TRDV1.01 0//0 IGKV1-12.01
1:IGLJ1.01 0//0 TRGJ1.01
......@@ -8,6 +8,14 @@ gaattattataagaaactctttggcagtggaacaacactggttgtcacag
ttacagctagaagattcagcaaagtacttttgtgctcttggggaact
gctgaatacttccagcactggggccagggcaccctggtcaccgtctcctcag
>IGKV1-12*01--IGLJ1*01 (revcomp)
>TRDV1*01--IGKV1-12*01 (J is a revcomp'd V)
ttacagctagaagattcagcaaagtacttttgtgctcttggggaact
ggagggaaactgttagcctgttgacaatagtaa
>IGLJ1*01--TRGJ1*01 (V is a revcomp'd J)
tgaccttggtcccagttccgaagacataa
gaattattataagaaactctttggcagtggaacaacactggttgtcacag
>IGKV1-12*01--IGLJ1*01 (both revcomp)
ctaggacggtgaccttggtcccagttccgaagacataa
ggagggaaactgttagcctgttgacaatagtaagttgcaaaatcttc
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