2017 Taeyoung Lab note
From Crop Genomics Lab.
Contents |
2017 1.2
Ongoing
Jatropha transcriptome Trinity assemble
raw data : 244:/NGS/NGS/JatrophaCurcas/RNA Jatropha species transcriptome assemble : Jct,Jcu, Jin, Jgo, Jci, Jpo, Jmu, Jma, Jac, Rco (listed in 244:/NGS/NGS/JatrophaCurcas/RNA/list). All done Jatropha organ transcriptome assemble : Leaf, Root, Stem, Female flower, Male flower, LG, SG, Y, B. All done
Cdhit
193:/data2/alima90/program/cdhit/cd-hit -i Y.cds.fa -M 10000 -o Y.cds.fa.cdhit -T 5 193:/data2/alima90/program/cdhit/cd-hit -i LG.cds.fa -M 10000 -o LG.cds.fa.cdhit -T 5
UV GBS mapping (w/ joinmap)
KaKs calculation using scripts provided by MCscanX
244 :python /alima9002/63_backup/Jatropha/CDS/run.kaks.py
