Difference between revisions of "2017 Haneul Lab note"
From Crop Genomics Lab.
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== 1/9 == | == 1/9 == | ||
=== Minyoung_UV_QTL === | === Minyoung_UV_QTL === | ||
| + | parsing genotype data(Joinmap) and phenotype data to ICImapping format(bip format) | ||
| − | + | using lgcombine.py(63:/data/skyts0401/Mungbean/MY_UV/) | |
| − | + | find linkage group 2 map is wrong, construct map newly | |
| − | + | ||
| − | find linkage group 2 map is wrong, construct map newly | + | |
=== Mungbean synchronous QTL === | === Mungbean synchronous QTL === | ||
| − | make loc file(244:/home/skyts0401/reseq/chr/Mungbean_chr_coseq_parse_seg_dist.loc) | + | make loc file(244:/home/skyts0401/reseq/chr/Mungbean_chr_coseq_parse_seg_dist.loc) |
| − | missing > 10%, hetero > 10, depth < 3 marker is filtered | + | missing > 10%, hetero > 10, depth < 3 marker is filtered |
| − | while groupings them, find vr03, vr04 is combined in a group and vr05 is splited 2 groups, check it. | + | while groupings them, find vr03, vr04 is combined in a group and vr05 is splited 2 groups, check it. |
=== Mungbean pacbio assembly === | === Mungbean pacbio assembly === | ||
| − | moving SAM data(align reseq data on pacbio-scaffold) from NICEM server to 244 server (244:/kev8305/SK3/) | + | moving SAM data(align reseq data on pacbio-scaffold) from NICEM server to 244 server (244:/kev8305/SK3/) |
Revision as of 09:40, 9 January 2017
Contents |
1/9
Minyoung_UV_QTL
parsing genotype data(Joinmap) and phenotype data to ICImapping format(bip format)
using lgcombine.py(63:/data/skyts0401/Mungbean/MY_UV/)
find linkage group 2 map is wrong, construct map newly
Mungbean synchronous QTL
make loc file(244:/home/skyts0401/reseq/chr/Mungbean_chr_coseq_parse_seg_dist.loc)
missing > 10%, hetero > 10, depth < 3 marker is filtered
while groupings them, find vr03, vr04 is combined in a group and vr05 is splited 2 groups, check it.
Mungbean pacbio assembly
moving SAM data(align reseq data on pacbio-scaffold) from NICEM server to 244 server (244:/kev8305/SK3/)
