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boutroslab / CRISPRAnalyzeR

CRISPRAnalyzeR: interactive analysis, annotation and documentation of pooled CRISPR screens
GNU General Public License v2.0
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low % alignment terminates analysis #25

Closed nvanduse closed 7 years ago

nvanduse commented 7 years ago

When I upload several libraries if the alignment is below ~30% for any one of them, a warning message pops up and the analysis is terminated. Is there anyway to proceed with the analysis even with low % alignment? thanks Nathan image

jwinter6 commented 7 years ago

Hi Nathan,

thanks for your post. Right now, there is no way to proceed except for leaving those files out. The idea was to raise the awareness of such issues instead of just going on. I will add a checkbox that can be activated to proceed though the alignment rate is that low.

Best Jan

nvanduse commented 7 years ago

Sounds good! Thanks

On Apr 21, 2017 5:05 AM, "Jan Winter" notifications@github.com wrote:

Hi Nathan,

thanks for your post. Right now, there is no way to proceed except for leaving those files out. The idea was to raise the awareness of such issues instead of just going on. I will add a checkbox that can be activated to proceed though the alignment rate is that low.

Best Jan

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/boutroslab/CRISPRAnalyzeR/issues/25#issuecomment-296135453, or mute the thread https://github.com/notifications/unsubscribe-auth/AaiD0pmSnQ4ExebHH-fk8y0ka_rX-_Zlks5ryHFTgaJpZM4NDO-Y .

jwinter6 commented 7 years ago

Hi Nathan,

I will upload a 1.16BETA version later this day (still testing). Could you please give it a try and let me know if it works? It also harbors the new FASTQ handling pipeline that is 14x faster.

you can just get it using docker pull boutroslab/crispranalyzer:1.16BETA

and when you start the docker, just replace boutroslab/crispranalyzer:latest with boutroslab/crispranalyzer:1.16BETA

In Case you use Kitematic, you can just change the version by choosing a different tag.

Best Jan

nvanduse commented 7 years ago

Sure, thanks.

On Fri, Apr 21, 2017 at 8:44 AM, Jan Winter notifications@github.com wrote:

Hi Nathan,

I will upload a 1.16BETA version later this day (still testing). Could you please give it a try and let me know if it works? It also harbors the new FASTQ handling pipeline that is 14x faster.

you can just get it using docker pull boutroslab/crispranalyzer:1.16BETA

and when you start the docker, just replace boutroslab/crispranalyzer:latest with boutroslab/crispranalyzer:1.16BETA

In Case you use Kitematic, you can just change the version by choosing a different tag.

Best Jan

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/boutroslab/CRISPRAnalyzeR/issues/25#issuecomment-296180717, or mute the thread https://github.com/notifications/unsubscribe-auth/AaiD0kQZ6Lr_6y7YjmaJF6Fq1w2c6WzAks5ryKS4gaJpZM4NDO-Y .

jwinter6 commented 7 years ago

Hi Nathan,

the BETA version is up and running.

Best Jan