2nd way, CGmapTools was a good downstream research bundle with which has 40 properties to have DNA methylation research
Q: Each of my CGmap files features ranging from 1,000 and 2,100 ranks where the latest nucleotide is provided versus a motif, but rather merely “–” for example:
A: You could potentially query brand new administrator of one’s party to put in pysam. Otherwise should irritate your/the girl, you might need to construct your python, immediately after which developed the fresh “pysam” plan. Next script was helpful for your.
A: This error is related which have pysam variation. Assessment playing with pysam v0.6.x would not have instance error. Anyone profile such as mistake when using pysam v0.seven.cuatro. I haven’t try almost every other pysam models, and are really pleased for folks who you will inform us if this deals with most other products. Update : Inside the type 2.step one.dos and later, BS-Seeker2 consided the challenge which have pysam variation. For individuals who still deal with equivalent mistake despite your revision so you can dos.step 1.2, you’re asked to transmit feedbacks so you’re able to all of us.
Q: I tried bs_seeker2-call_methylation.py, found this new realize depth inside the CGmap document is below 8000, where in fact the reads can be a lot higher. (Thank you Xuning Wang having calculating this problem and you may solve they)
A: It is associated from the with factor from inside the pileup means parsing to help you “pysam”. (altro…)