deb0612

Dear sir I use "seqtk subseq R1.clean.fastq.gz wgEncodeGencodeBasicV37.bed" to extract sequence. However it doesn't work.

ERROR: Cannot set a frame with no defined index and a value that cannot be converted to a Series

2

Dear sir, When I tried to use : "CRISPRessoWGS -b 1K/PCR-KL20211111-ALAS1-1_S52_L002.sorted.bam.bam -f guide.txt -r ALAS1_ngs1k.fasta" It shows massage like ~~~CRISPRessoWGS~~~ -Analysis of CRISPR/Cas9 outcomes from WGS data- _ _ '...

Error in genes.de[[i]] : subscript out of bounds

10

Dear sir, When I use cellchat

Dear sir, I tried to apply genefuse to our RNA-seq with known fusion gene. Somehow we couldn't find any fusion gene. command I used: genefuse -r hg19.fa -f druggable.hg19.csv -1...

Error in base::basename(path, ...) : a character vector argument expected

1

Dear sir: I tried data =superFreq(file, normalDirectory=normalDirectory, Rdirectory=Rdirectory, plotDirectory=plotDirectory, reference=reference, genome=genome, cpus=cpus, mode=mode) But I got error below: [runtimeTracking.log](https://github.com/ChristofferFlensburg/superFreq/files/6640274/runtimeTracking.log) Normal directory: /NGS_Storage/Debbie/RNA-seq/variant_calling_20210602/RSEM/referenceNormals Normal coverage directory: /NGS_Storage/Debbie/RNA-seq/variant_calling_20210602/RSEM/referenceNormals dbSNP directory: superFreqResources/dbSNP capture...

the default bin size of batch --method wgs

3

Dear sir, I tried to apply "cnvkit.py batch Sample1.bam -n Control1.bam -m wgs -f hg38.fasta --annotate refFlat.txt" to my WGS data. When use gencode.v37.annotation as target bed, we got very...

Error in h(simpleError(msg, call))

13

Dear sir, There are something wrong when I rumming freaser,  Is there anything wrong with bam file?

Error in rule AberrantSplicing_pipeline_Counting_01_1_countRNA_splitReads_samplewise_R

1

Dear sir, I can ran "snakemake --cores 1 -n" successfully, however there was a error when running "snakemake --cores 1".  Is there something wrong with sample HG00096?

Collecting GC information Error in (function (x, col_types)

10

Dear sir, I ran sacrHRD normally untill recent months. The error message below:  Is that the R version or any update ?

Dear sir, I tried to use fds