Results for "minimap2"
Bio-Scripts
Install Minimap2 using conda !
vik@vik-Lenovo-ideapad-320-15ISK:~/Downloads/setu/setu$ conda install -c bioconda minimap2 Collecting package metadata (current_repodata.json): done Solving environment: done ==> WARNING: A newer version of conda exists.1067 days ago
Long reads mapper bash script !
...S mapping #USAGE: runMapper.sh minimap2 ref.fa reads.fa/fq 48 ont ec...graphmap/bin/Linux-x64/graphmap minimap2Loc=/home/urbe/Tools/minimap2-...echo "#USAGE: runMapper.sh minimap2 ref.fa reads.fa/fq 48 ont"...cbio" fi elif [ $toolName == "minimap2" ]; then echo "Mapping wi...2135 days ago
Installing pb-assembly on Linux !
...linecache2: 1.0.0-py_1 conda-forge minimap2: 2.12-ha92aebf...##########################################| Time: 0:00:00 11.66 MB/s minimap2-2.12- 100% |#################...2047 days ago
Setting up falconUnzip conda environments for genome assembly !
...py_0 68 KB conda-forge minimap2-2.14 | ha9...1.0.0-py_1 conda-forge minimap2: 2.14-ha92aebf...#################################### | 100% minimap2-2.14 | 2.0 MB | ###...2002 days ago
Bash script to alignment of short reads against reference genome !
...sition. It uses the same criteria for marking duplicates as picard. minimap2 -ax sr -t 40 -R '@RG\tID:O104...tq.gz SRR341549_2.fastq.gz \ | samtools view -b - >SRR341549.raw.minimap2.bam sambamba sort SRR341549....1572 days ago
- (JitMetaENV) ➜ ~ conda install -c bioconda quast Collecting package metadata (current_repodata.json): done Solving environment: done ==> WARNING: A newer version...
1228 days ago
Installing Covid19 Environment !
...######################################################################################################################################## | 100% minimap2-2.22 | 483 KB | ###...936 days ago
Extract fasta header with ids !
...en --db ../../../../DATABASE/minikraken_20171019_8GB.tgz out.fa more out.fa_class.txt | grep "227859" | awk '{print $2}' > all_real_ids.txt minimap2 -t 36 -k19 -w5 -A1 -B2 -O3,13...889 days ago
