Results for "genetics test"
Bio-Scripts
(JitMetaENV) ➜ day2 conda install -c bioconda kraken2 Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solv...1219 days ago
- (JitMetaENV) ➜ assembly conda install -c bioconda prokka Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen s...
1219 days ago
Install and set up i-adhore for synteny and wgd analysis ! -- step by step --
...read.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Fai...ome/urbe/anaconda3/envs/wgd/./testset -- Installing: /home/urbe...ome/urbe/anaconda3/envs/wgd/./testset/datasetII/ptr_lists_030210...ome/urbe/anaconda3/envs/wgd/./testset/datasetII/ptr_lists_030210...1207 days ago
Tadpole is 250x faster than SPADes assembler !
lege@jit-Lenovo-ideapad-320-15ISK:~/Downloads/...(bm1) Min ratio of 1st to 2nd-greatest path depth at high depth. br...(bm2) Min ratio of 1st to 2nd-greatest path depth at low depth. bra...via overlap, but do not merge reads. testmerge=t Test kmer coun...980 days ago
Commands to Remove White Space In Text Or String Using Awk And Sed In Linux
text=" ATGGTV AGTGACCTAGAGTGATGA G GGRTTT" echo "$text"...text" | sed 's/ \$//g' #Multiple space cat /tmp/test.txt | sed 's/[ ]\+/ /g' ec...t1" | awk '{ gsub(/[ ]+/," "); print }' cat /tmp/test.txt | awk '{ gsub(/[ ]+/," ")...960 days ago
- #using : after a switch variable means it requires some inpu...exit 1 ;; t) TEST=$OPTARG ;;...exit ;; esac done if [[ -z $TEST ]] || [[ -z $SERVER ]] || [[...
953 days ago
- ...ceforge.net/projects/bbmap/ /genetics/elbers/bbmap-38.86/randomread...ceforge.net/projects/bbmap/ /genetics/elbers/bbmap-38.86/reformat.s...u/ mkdir -p /genetics/elbers/test/fly2/kmergenie-illumina-raw-reads cd /genetics/elbers/test/fly2/kmergenie-illumina-raw-r...
932 days ago
Bash script to simulate a genome !
...ongaster PacBio assembly cd /genetics/elbers/test/fly2 wget https://ftp.ncbi.nlm.n...na_upper.diploid.fasta.gz|\ /genetics/elbers/bin/seqtk/seqtk seq -L...u/ mkdir -p /genetics/elbers/test/fly2/kmergenie-illumina-raw-reads cd /genetics/elbers/test/fly2/kmergeni...922 days ago
Extract fasta sequences with ids in another file !
#Ids are in test.txt - one ids per line #sequences are in test.fa grep -w -A 2 -f test.txt test.fa --no-group-separator # seqtk seqtk subseq test.fa test.txt #faSomeRecods faSomeRecords in.fa listFile out.fa # seqkit seqkit grep -n -f list.txt sequences.fas > newfile2.fas893 days ago
bash script to extract sequence by ids !
Use a Perl one-liner, grep and seqtk subseq to extract the desired fasta sequences: # Create test input: cat > in.fasta BGI_...827 days ago
