Results for "bam"
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Public Databases for Bioinformatics !
...p;https://www.encodeproject.org/files/ENCFF546PJU/@@download/ENCFF546PJU.bam, https://www.encodeproject.org/files/ENCFF059BEU/@@download/ENCFF059BEU.bam. Blacklisted regions were obt...1139 days ago
- ...f three statistically-based variant detection tools:* SAMtools: Mpileup* GATK: Unified Genotyper* FreeBayesEach of these tools takes as its input a BAM file of aligned reads and gen...
3652 days ago
- ...emblies Find variation among strains, including large event detection Pilon requires as input a FASTA file of the genome along with one or more BAM files of reads aligned to the...
3008 days ago
- ...Human hg18 (NCBI36) <> hg19 (GRCh37), Mouse mm9 (MGSCv37) <> mm10 (GRCm38)). It supports most commonly used file formats including SAM/BAM, Wiggle/BigWig, BED, GFF/GTF,...
3008 days ago
- ...collection of data from multiple data files. They rely on BioPerl SeqFeature libraries and related adaptors to access binary file formats including Bam, BigWig, BigBed, and USeq. Th...
2997 days ago
- Picard is a set of command line tools for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF. These file formats are defined in the Hts-spec...
2928 days ago
REAPR: a universal tool for genome assembly evaluation
...broken assembly based on the error calls. The software requires as input an assembly in FASTA format and paired reads mapped to the assembly in a BAM file. Mapping information suc...2950 days ago
HOMER: Software for motif discovery and next-gen sequencing analysis
...or from public sources) Checking sequence quality, trimming, general sequence manipulation Mapping reads to a reference genome Manipulating SAM/BAM alignment files Visualizing...2931 days ago
- ...ecuted individually to generate specific charts and tables. GAEMR standardizes input by converting a variety of read types to Binary Alignment Map (BAM) format, allowing a single in...
2882 days ago
- SAMtools: Primer / Tutorial by Ethan Cerami, Ph.D.keywords: samtools, next-gen, next-generation, sequencing, bowtie, sam, bam, primer, tutorial, how-to, introductionRevisions &...
2873 days ago
