CRISPResso2

CRISPResso2 copied to clipboard

Crispressopooled giving ERROR: type object 'object' has no attribute 'dtype'

5

I ran this command and it gave me CRISPRessoPooled -r1 TREATED_R1.fastq.gz -r2 TREATED_R2.fastq.gz -f crispressoexp_config.txt -x Genomes/hg38/genome --name AMPLICONS_AND_GENOME --gene_annotations gencodev41.gz --debug and it gave me this error INFO @...

Rajeefa

time out during analysis...

1

I run CRISPResso2 on command line but it appeared to time out before completion. I did not get all of the typical output files. Could it be that the fast...

weiss480

--bam_output Failing during sorting step

1

Hi! I am running CRISPResso with two fastq files, an amplicon input, gRNA input, and some specific paramters. I get this error when I run --bam_output with the --debug flag....

Aastha428

Cannot run Crispresso2 with more then one pegRNA, pegRNA_extension and ngRNA

1

Hi all, I did an PE screen where I have more than one edit induced in the same sequence. So this means I have one amplicon as reference but more...

JH1606-code

Adding verbosity control to CRISPRessoCORE for parallel command line run

1

Adding verbosity control & sample annotation to the error message for parallel command line run.

jykr

**Is your feature request related to a problem? Please describe.** For base editors, fisher's exact test for all substitution doesn't work when I'm interested in specific base substitution. **Describe the...

jykr

larger amplicon analysis

4

**Is your feature request related to a problem? Please describe.** I would like to be able to run CRISPResso2 on amplicon ranging from 1,000 - 2,000 bp

weiss480

Paired read processing

1

The algorithm runs the unit tests successfully now, I imagine that it needs to be integrated into the core so that the newly aligned reads are actually used, right? If...

Colelyman

Error in Mixed mode run during demultiplexing of reads

2

Hi, I'm running CRISPResso2 in mixed mode and for some samples it is not able to generate index file for the bam alignment and in turn it does not generate...

DavideGue

Possibility of filtering reads based on phred score of selected basepairs

5

Hi. Thanks for a great pipeline! I have a population of cells where cells with two different knock-in single nucleotide substitutions are present amongst unedited cells. I would like to...

caspl1