KyungTae Lee

Questions about sequin used

2

Hi, thank you for providing such a wonderful resources to the community. I am trying to analyze the data to compare performance of multiple quantification program. To do that, I...

Interpretation of log2 fold changes in the result

1

Hi, thank you for providing such a great tools. I am currently analzying UTR length shift using the function "DetectUTRLengthShift". Among the parameters of DetectUTRLengthShift function, you can specify population.1...

Error when running on long-read data

2

Hi, I am trying to run JAFFAL pipeline using apptainer. Below is commandline I used for unning `apptainer run -B {JAFFA_file_dir} -B {Ref_dir} -B {input_file_dir} docker://davidsongroup/jaffa:latest {JAFFA_file_dir}/JAFFAL.groovy {input_file_dir}/input.fastq.gz` I am...

Using Isoquant for single-cell data and de-duplications

1

Hi, thank you for providing such a wonderful tool and keeping constant updates. I am currently trying to use Isoquant for single-cell Nanopore data (10X cDNA library -> genomic ligation...

SyntaxWarning in reporter_SNV.py

5

Hi, thank you for the great tool and recent update. I ran reporter_SNV.py -h to check if it is correctly installed and gave out syntax warning message as follows. ```...

Hi, thank you for developing such a great tool. I have single-cell long-read (Nanopore sequencing) data generated from 10X 5' kit and created genotype matrix from it. Would it be...

Inquiry about calculating and comparing TF activity in different cell population

1

Hi, thank you for providing such a great tool. I have two cell populations of interest to compare and want to know how the TF activities vary between those two...