run394

EPI1-EPI3 are three biological replicates (CTRL) and EPI4-EPI6 are the other 3 biological replicates (ColVI-Cre).

I think the sequencing of another 6 samples call MC1-6 has also finish. If I am correct, could you include them in the analysis? As before, MC1-MC3 are three biological replicates (CTRL) and MC4-MC6 are the other 3 biological replicates (ColVI-Cre).


the  contrasts are

EPI1-3 (CTRL) vs EPI4-6 (ColVI-Cre)
MC1-3 (CTRL) vs MC4-6 (ColVI-Cre)

We would like to compare also:

EPI1-3 (CTRL) vs MC1-3 (CTRL) and 
EPI4-6 (ColVI-Cre) vs MC4-6 (ColVI-Cre)

Best regards,
Alex

/data/images/proton2/run394/www/
GK3R170-EPI1.bam -> /data/images/proton2/run394/tophat_019/sort_uniq.bam
GK3R171-EPI2.bam -> /data/images/proton2/run394/tophat_020/sort_uniq.bam
GK3R172-EPI3.bam -> /data/images/proton2/run394/tophat_021/sort_uniq.bam
GK3R173-EPI4.bam -> /data/images/proton2/run394/tophat_022/sort_uniq.bam
GK3R174-EPI5.bam -> /data/images/proton2/run394/tophat_023/sort_uniq.bam
GK3R175-EPI6.bam -> /data/images/proton2/run394/tophat_024/sort_uniq.bam

/data/images/proton2/run395/www/
MPB3R1_LSKwt1.bam -> /data/images/proton2/run395/tophat_013/sort_uniq.bam
MPB3R2_LSKko1.bam -> /data/images/proton2/run395/tophat_014/sort_uniq.bam
MPB3R3_LSKwt4.bam -> /data/images/proton2/run395/tophat_015/sort_uniq.bam
MPB3R4_LSKko4.bam -> /data/images/proton2/run395/tophat_016/sort_uniq.bam
MPB3R5_LSKwt6.bam -> /data/images/proton2/run395/tophat_017/sort_uniq.bam
MPB3R6_LSKko6.bam -> /data/images/proton2/run395/tophat_018/sort_uniq.bam