Shiyi Yin

without logging in which functions are available?

1

 I am using get quote, but get error code API url Thanks.

multiple enzymes and multiple overhang

1

 my processed are being killed, not sure why yet. Is there a debug portion of the output available for each run? thank you --restrictionSequence GAATC GAGTC GATTC GACTC GATC...

source activate fail

3

Specified adapter for rep1:00 (PE) : None /mnt/NFS/homeGene/HarrisLab/sxx128/atac.bds.20190717_200226_884_parallel_38/task.align_etc.read_length_rep1.line_17.id_10.sh: line 7: activate: No such file or directory /mnt/NFS/homeGene/HarrisLab/sxx128/atac.bds.20190717_200226_884_parallel_38/task.align_bowtie2.bowtie2_PE_rep1.line_142.id_11.sh: line 7: activate: No such file or directory Task failed: Program & line...

i got it working, can you share the part to make the graphics like you have in the web server from contrib.txt thanks

Dear HiC group, I had an interesting discussion with colleague, "is adapter trimming necessary in HiC-pro"? 150PE reads, maybe some nt are adpator, but alignment will only keep the aligned...

multiple enzymes ligation product

2

I am trying to analyze data that uses multiple REs. I learned that from ARIMA kit: ^GATC,G^ANTC ligation product of the ARIMA kit: GATCGATC,GANTGATC,GANTANTC,GATCANTC What should these digest_genome.py -r G^ANTC...

When I run this step the following error pop out, thanks for your time ('H3K27AC', 'chr13', 0.4998916106655105) ('H3K27AC', 'chr12', 0.5) ('H3K27AC', 'chr11', 0.5001105460977228) ('H3K27AC', 'chr10', 0.5001097694840835) ('H3K27AC', 'chr17', 0.5001108401684771) ('H3K27AC',...

My coworkers are having a debate regarding when to run ScaleData, I thought to seek some guidance from the developer or other experts. In the original V3 [link](https://satijalab.org/seurat/archive/v3.1/integration.html). ScaleData is...

ics_df = ic_read("Downloads/mycalendar.ics")

11

Error in if (!is.na(x) & !x == "NA" & !grepl("^\\d{8}T\\d{6}Z?$", x)) { : the condition has length > 1 Anyone know the possible bugs?

hicpro give five pdf for QC metrics, those added to 100% of the reads, so users know exact where reads go, eg. pairs with singleton see my attached examples. ...