Results for "Deep Sequencing"
Bio-Scripts
...Tools that process sequencing machine data, e.g. Illumina base calls, and detect sequencing level attributes, e.g. adapte...Collect whole genome sequencing-related metrics. Colle...ed allele fractions in pooled sequencing CalculateGenotypePosteri...2074 days ago
Bash script to download SRA file !
#We can use the sratoolkit to directly pull the sequence data (in paired FASTQ form...p is in the SRA toolkit. It allows directly downloading data from a particular sequencing run ID fastq-dump --split-...1558 days ago
To convert just one specific read group to fastq
# Stop script on error. set -uex # The SRR BioProject number for the sequencing data. PROJECT=PRJNA257197 # The...1541 days ago
Pack a perl program with their dependencies on Ubuntu !
#Follow steps to create your own executable ./web ji...A is a method for detecting structural variants in sequencing data using genome-wide local...ansfer (HGcoT) between bacteria using whole-genome sequencing (WGS) data. It is particularl...1510 days ago
- (JitMetaENV) ➜ assembly conda install -c bioconda prokka Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solv...
1214 days ago
- Use pen and paper the assemble it. If you are brave enough, you can try to assem...T AGCCGGACCT TATGATCATT TCATTAGGCG AGGCGGAGCT HINT: There is NO sequencing errors HINT: Overlaps are...
1214 days ago
Tadpole is 250x faster than SPADes assembler !
lege@jit-Lenovo-ideapad-320-15ISK:~/Downloads/MyTools/Vir$ tadpole.sh Written by B...(elc) Use mult2 when the lower kmer is at most this deep. mincountcorrect=3 (mcc) D...depth=1 (msd) Shave or rinse kmers at most this deep. exp...975 days ago
Install Varscan on Ubuntu / Linux !
#Varscan is a java program designed to call variants in sequencing data. It was developed at the Genome Institute at Washington University and is hosted on github. To use Varscan we simply need to d...822 days ago
