Results for "and specific"
Bio-Scripts
...e XML::XPath; use XML::XPath::XMLParser; # Use DAS of UCSC to fetch specific sequence by its given ch...ze) { die "ERROR: You must pass three arguments: chr. num., position, and size.\n$usage"; } chomp $si...2955 days ago
Install ATOM editor on Elemantory OS / Ubuntu
...ges were automatically installed and are no longer required: gi...libido3-0.1-0 libllvm6.0 libwayland-egl1-mesa Use 'sudo apt auto...eading database ... 194272 files and directories currently install...to see the more details about a specific command. Options: --color Ena...1221 days ago
Calculate ATGC percentage in parallel with perl
...y $seq = $seqobj->seq; # and there's your value $sequ...ash to resolve PID's back to child specific information my $pm =...he pool ". "with PID $pid and exit code: $exit_code\n";...$pid = $pm->start($names[$child]) and next NAMES; checkATCG($names[...2701 days ago
- ...NC_000001.10) or file specific name (ex:..."chr1" or "1"). "from" and "to" are 1-based...are placed in files *_1.fastq and...Defline format specification for sequence. --defl...
2171 days ago
Install Parrot Virtual Machine !
...the `--ask' flag on the command line, in which case I'll prom...hints - Load platform and local hints files...............:cpu - Generate CPU specific stuff....................... auto::infnan - Is standard C Inf/NaN handling present........1582 days ago
- ...ES/FILE gatk forwards commands to GATK and adds some sugar for submittin...Reads a SAM or BAM file and rewrites it with new adapter-...that pass quality thresholds and Illumina-specific filters. CollectQualit...AM/CRAM by read group, sample and library name SplitSamByLibrar...
2120 days ago
To convert just one specific read group to fastq
# Stop script on error. set -uex # The SRR BioProject number for the sequencin...les. samtools fastq -t -1 all1.fq -2 all2.fq all.bam # To convert just one specific read group. samtools view -r...1587 days ago
Installing docker for Bioinformatics on Ubuntu !
...that you will have to log out and back in for this to take effe...overrides DOCKER_HOST env var and default context set with "doc...List port mappings or a specific mapping for the containe...exit codes Run 'docker COMMAND --help' for more information on a...1558 days ago
Commands to install conda in Ubuntu !
...SD License: Redistribution and use in source and binary forms, with or without...INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, W...the import, possession, use, and/or re-exp ort to another country,...0.46-py37_0 ... installing: pandocfilters-1.4.2-py37_1 ... install...1556 days ago
Commandline to Extract a list of specific read IDs from a bam file
#Save all the IDs in IDs.txt file #Run it on BAM file samtools view file.bam | fgrep -w -f IDs.txt1041 days ago
