I need to remove 'chr' from my vcf file. This is the aspect of the vcf file: I want to have the following one I have tried several ways like the ...
I need to remove 'chr' from my vcf file. This is the aspect of the vcf file: I want to have the following one I have tried several ways like the ...
I have TABLE1 where first column is a string which should be replaced in the TABLE2 and second column in the TABLE1 is the value which should replace ...
Given a nucleotide sequence, I'm writing some Julia code to generate a sparse vector of (masked) kmer counts, and I would like it to run as fast as po ...
I really need some input on an R bioinformatics issue. I suspect this might be a case of me not completely understanding the adjustment step when doin ...
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 prob ...
I have some metabolomics data I am trying to process (validate the compounds that are actually present). I tried to write a loop so that if the Del ...
So I am new to nextflow, I am trying to pass the bam file produced by ALIGNMENT process to the MKDUP process but its throwing a null value error. I ki ...
I am very new to R studio, and I am currently learning how to do Kaplan-Meier survival curves. Here are the columns that are needed and the informati ...
I've had so much help with code errors when I've used this page. I really appreciate how much everyone wants to help out!!! I am brand new to any kind ...
I'm trying to download DNA sequence data from NCBI using entrez_fetch. With the following code, I perform a search for the IDs of the sequences I need ...
I have a nextflow script that runs a couple of processes on a single vcf file. The name of the file is 'bos_taurus.vcf' and it is located in the direc ...
I have one file which has list of IDs, index/header, let's call it list.txt and another file (large) which has the data/information (sequences) I w ...
How to download files from CNGB Gene bank FTP server from url with "assembly.fa.gz" extension using linux commands. Url: https://ftp.cngb.org/pub/gig ...
I'm currently working on trying to analyze a dataset. I'm new to the field of bioinformatics and was trying to use BWA tools, however, as soon as I re ...
I am trying to calculate person-years for my dataset (that contains fake patients data), stratifyng them by age group. My age groups have 5 years incr ...
I'm trying to extract just the sequence ID from the the file in Linux server. To give you few examples TRINITY_DN0_c0_g1_i1.p1 and TRINITY_DN0_c0_g1 ...
I want to plot a heatmap where the x-axis is clustered by "normal" and "KIRP" from left to right. Currently, my code clusters by dendrogram/similarity ...
I've been trying to use the multiGSEA package Vignette for multiGSEA to generate a combined p-value for pathways merging transcriptomics and metabolom ...
I have DataFrames that have species indicators as columns, in these examples 30, and a variable amount of rows, the examples here are 450_631 (low) an ...
After profiling STR locus in a population, the output gave me 122 files each of which contains about unique 800,000 locus. There are 2 examples of my ...