Results for "Reference"
Bio-Scripts
Bash script to alignment of short reads against reference genome !
...nd also "give the reads the read group K12 and the sample name K12" #reference and FASTQs E.coli_K12_MG1655....413_1.fastq.gz SRR1770413_2.fastq.gz --- this just specifies the base reference file name (bwa finds the inde...1554 days ago
Create random 10000 SNPs in genome !
...ut files .. Generating the correspondance map for genomic variants introduced during simulation: simuSNP.refseq2simseq.map.txt Generating reference-based vcf file for genomic va...1206 days ago
Create random 1000 INDEL in genome !
...files .. Generating the correspondance map for genomic variants introduced during simulation: simuINDEL.refseq2simseq.map.txt Generating reference-based vcf file for genomic va...1206 days ago
Create random 1000 CNVs in genome !
...ut files .. Generating the correspondance map for genomic variants introduced during simulation: simuCNV.refseq2simseq.map.txt Generating reference-based vcf file for genomic va...1206 days ago
Create random 5 inversions in genome !
...ut files .. Generating the correspondance map for genomic variants introduced during simulation: simuINV.refseq2simseq.map.txt Generating reference-based vcf file for genomic va...1206 days ago
Create random 2 translocations in genome !
...files .. Generating the correspondance map for genomic variants introduced during simulation: simuTRANS.refseq2simseq.map.txt Generating reference-based vcf file for genomic va...1206 days ago
- ...2_L0_genomic.gff ../../GCF_001039355.2_L0_genomic.fna > La.cds.fa #Find more at http://blog.shenwei.me/extract-cds-fastas-from-a-gff-annotation-reference-sequence/
1198 days ago
Commandline for paired end reads simulation with BBMap !
...3 [build=1, ref=mixed.fa, out=reads_BBMAP250.fq, paired, interleaved, reads=100k, length=250, mininsert=400, maxinsert=600, gaussian] Writing reference. Executing dna.FastaToChromA...985 days ago
- # make reference for randomreads.sh # randomreads.sh part of BBTools/BBMap https://sourceforge.net/projects/bbmap/ /genetics/elbers/bbmap-38.86/randomreads.sh build=1 \ s...
923 days ago
Installing Covid19 Environment !
...h \ The default QUAST package does not include: * GRIDSS (needed for structural variants detection) * SILVA 16S rRNA database (needed for reference genome detection in metagenom...918 days ago
