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Download mutliple fasta file from NCBI in one GO!!
if you have less time, then use three ways mentioned in bookmark link to extract/download all fasta sequences in single click given that you already have a list of GIs...3908 days ago
Java and BioJava Tutorial links
BioJava provides analytical and statistical routines, parsers for common file formats and allows the manipulation of sequences and 3D structures. The goal of this bookmark is to provide useful links for bioinformatician. Please add more useful Java and BioJava links here ...3901 days ago
Public Databases for Bioinformatics !
...0-17155-yServer Infrastructure: File Server: dhara: Synology 36...rage 12TB RAID5 local storage Filesystem: /users/$USER defau...ing patterns: # gzip a bunch of files parallel gzip -- *.FILESTOG...nbsp;https://www.encodeproject.org/files/ENCFF446WOD/@@download/ENCFF...1137 days ago
- ...ree 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 generate...
3651 days ago
- ...y improve draft assemblies 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 inpu...
3007 days ago
- ...a program for convenient conversion of genome coordinates (or annotation files) between different assemblie...e mm9 (MGSCv37) <> mm10 (GRCm38)). It supports most commonly used file formats including SAM/BAM, Wi...
3007 days ago
- ...s the alignment data to define how a coordinate or coordinate range on the old assembly should be transformed to the new assembly (e.g., as a chain file), transform the coordinates (...
3005 days ago
- ...ne annotation, collecting data scores from a variety of modern file formats, and conversion between file formats. The Bio::ToolBox lib...erl SeqFeature libraries and related adaptors to access binary file formats including Bam, BigWig...
2996 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-specs...
2926 days ago
REAPR: a universal tool for genome assembly evaluation
...ken 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 such as...2949 days ago
