Results for "PA"
Bio-Scripts
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.fas948 days ago
Run Pango on your multifasta file !
...ova_all_samples_combined.fa (pangolin) [jnarayan@hn1 FASTA]$...n1 FASTA]$ pangolin --update pangolin already latest release...equences detected: 320 Total passing QC: 293 Data files fo...1 1 pangolearn 1...946 days ago
Extract fasta header with ids !
...txt minimap2 -t 36 -k19 -w5 -A1 -B2 -O3,13 -E2,1 -s200 -z200 -N50 --min-occ-floor=100 finaal_output.fasta finaal_output.fasta > finaal_self_align.paf936 days ago
- Lenovo-ideapad-320-15ISK:~/VANSH$ conda upd...- conda The following packages will be downloaded:...8_0 14.4 MB conda-package-handling-1.7.3| py38h2...38h27cfd23_1 The following packages will be DOWNGRADED:...################# | 100% Preparing transaction: done Verify...
921 days ago
Perl script to rename the fasta file !
#Script #1 #!/usr/bin/perl -w use strict; #USAGE #perl extractPattern.pl kmerfasta > uniref100_result_broad my %kHash; local $/ = '>'; my $infile2 = "$ARGV[0]"; # Kmer fasta open( FH2, '917 days ago
- # bash cat INFILE.fastq | paste - - - - |cut -f 1, 2| sed 's/@/>/'g | tr -s "/t" "/n" > OUTFILE.fasta #awk cat infile.fq | awk '{if(NR%4==1) {printf(">%s\n",substr($0,2));} e...
909 days ago
- ...gin example would go in /mod/example/ actions/ example/ action.php other_action.php classes/ VendorNamespace/ PluginNamespace/ ExampleClass....
897 days ago
Installing SEVA environment in Conda !
...Downloading and Extracting Packages libtiff-4.3.0 |...#################### | 100% pandoc-2.17 | 12.7 MB...############ | 100% r-colorspace-2.0_1 | 2.5 MB | #####...############### | 100% r-rcpparmadillo-0.10 | 1.2 MB | ##...897 days ago
- ...lving environment: done ## Package Plan ## environment...- ruby The following packages will be downloaded:...5.7 MB The following NEW packages will be INSTALLED:...Downloading and Extracting Packages gdbm-1.18 |...
884 days ago
- ...python=3.6 The following packages will be downloaded:...4308_3633 4.2 MB pango-1.42.0 |...2021.5.30-py36h06a4308_0 expat pkgs/main/linux...:openssl-1.1.1m-h7f8727e_0 pango pkgs/main/lin...
884 days ago
