-
based on some of the results for the new long-read benchmarking paper Portik et al. ([link](https://www.biorxiv.org/content/10.1101/2022.01.31.478527v1) - not yet updated), @bluegenes and I were discu…
-
Hi,
I am trying to map paired-end single-cell RNA-seq data with STARSolo. The cell barcode and UMI are located on a separate third read (in reality the the UMI and CB are located on different reads…
-
Hello everyone, I am using minimap2 with a fasta and a fastq files.
The line that I am trying is the following:
./minimap2 -ax map-ont reference.fasta BC10.fastq > output.sam
But the mapping re…
-
I am trying to download sequence data from _E. coli_ samples within the state of Washington - it's about 1283 sequences, which I know is a lot. The problem that I am running into is that entrez_search…
-
> bash ./hic2give ./ test.hic giveInteraction.bed 40000
>
bin size that user wants to extract the data from (please make sure the bin size you entered is contained in the hic file).
I'm trying t…
-
Hi, I am trying to perform a fungal genome de novo assembly project using sequencing data from NGS+Nanopore.
I first used flye for genome assembly using nanopore data, followed by one round of poli…
-
Line 439 in processRead.sh.
Rscript --vanilla ~/replong/linenum.R $file
Lines 390 and 461 get it right (I guess), as do ten other uses of R scripts.
-
Hi,
I would like to know know how to prepare the input files to run the IntOGen-Plus.
I cound'nt find any documentation explanining the detailed input format for the pipeline.
Are there any example …
-
I get the same alleles hla a_01_01_01, hla b_07_02_01 and hla c_01_02_01 when I run WES bam files from different individuals. When I run the test.bam, only hla c second winner did not match with the o…
-
Hi!
First, let me thank you for releasing and maintaining shapeit4, and with setting aside time to contend with what usually amounts to user error on part of the community (which I will likely be gu…