BOL: Results for "Trim"

Results for "Trim"

- Surabhi Chaudhary@surabhi
BBTools for bioinformatician !
...nknown primers Code: $ reformat.sh in=reads.fq out=trimmed.fq ftr=19 This will trim all but the first 20 bases (a...ra.fa.gz" and get them all (this will increase the amount of overtrimming, though it should still b...
2274 days ago
- Rahul Nayak@rahul
Installing Trinity !
...y-plugins/ParaFly-0.1.0' make[2]: Leaving directory '/home/urbe/Tools/trinityrnaseq-Trinity-v2.6.6/trinity-plugins/ParaFly-0.1.0' ln -sf Trimmomatic-0.36 Trimmomatic make[1]: Leaving dire...
2136 days ago
+1 more Blogs

- Jit@jit.aber
CANU: Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing.
...line which runs in four steps: Detect overlaps in high-noise sequences using MHAP Generate corrected sequence consensus Trim corrected sequences Assemble trimmed corrected sequences Rea...
2917 days ago
- BioStar@biostar
Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads
...INT: kmer_length (<=32, default: 23) -od STRING: output_file_directory (default: ./) -t INT: number of threads to use (default: 1) -trim : allow trimming (default: false) -maxco...
1554 days ago

- Jit@jit.aber
BBMap/BBTools package: Multipurpose tool designed for converting reads or other nucleotide data between different formats.
...ese will break pairing, if the input is paired. Quality trimming (either or both ends) Quality filtering Fixed-length trimming Generation of histograms...64: reformat.sh in=x.fq out=y.fq qin=33 qout=64 Quality-trim paired reads to Q10 on the le...
2717 days ago
- Rahul Nayak@rahul
Gap filling or Contigs extensions tools !
...ired reads that align extending these new paired-end reads. c. Construct a new assembly C' from C and the new reads identified in (a) and (b). d. Trim C' so it does not extend more...
2168 days ago

- Rahul Nayak@rahul
AlienTrimmer: A tool to quickly and accurately trim off multiple short contaminant sequences from high-throughput sequencing reads http://www.sciencedirect.com/science/article/pii/S0888754313001481
3559 days ago
- Jit@jit.aber
#Sickle ( https://github.com/najoshi/sickle ) to #trim #reads using a 20-Phred quality threshold
2494 days ago

- Surabhi Chaudhary@surabhi
Perl script to extract fasta sequence by matching name/ids !!
#!/usr/bin/perl use strict; use warnings; use Text::Trim qw(trim); #Usage perl extractSeqbyID.pl ids.txt...pen OUT, ">$out" or die; open FILE, "$fasta" or die; while () { trim($_); s/>//g; my ($i...
2878 days ago
- Jit@jit.aber
Installing Porechop on Ubuntu !
...[--require_two_barcodes] [--untrimmed] [--discard_unassigned]...] [--end_size END_SIZE] [--min_trim_size MIN_TRIM_SIZE]...(default: 4) --extra_end_trim EXTRA_END_TRIM...
2109 days ago
+4 more Bio-Scripts

- Rahul Nayak@rahul
Comment on "CANU: Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing."
...master) ✗ ./canu usage: canu [-version] [-citation] \ [-correct | -trim | -assemble | -trim-assemble] \ [-s <assembly-...to only a specific stage, use: -correct - generate corrected reads -trim - generate trimmed reads -ass...
2102 days ago
- Jit@jit.aber
Comment on "AfterQC: Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data"
...fterQC AfterQC - Automatic Filtering, Trimming, Error Removing and Quali...y data and that is used to filter, reformat and trim next-generation sequence data...QA now also supports Ion Torrent and 454 data. Trim galore! Trim_galore ...
2140 days ago
+1 more Comments