Genomic data manipulation tool
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Updated
Jul 9, 2024 - Python
Genomic data manipulation tool
Genome browser and variant annotation
vSNP -- validate SNPs
Process Illumina instrument data into SAM/BAM/CRAM files.
Utility to check Binary Sequence Alignment / Map (BAM) files for corruption and repair them
fxtools: light-weight processing tool for FASTA/FASTQ/BAM format data
Download fastqs or supplementary files from GEO and upload to hca-util bucket
Parse and process SAM and BAM formatted files
create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
htslib for the zig build system
Go / Golang Bioinformatics Library
A command line tool (in Kotlin/JVM) for intuitively visualizing BAM alignments. (Currently unmaintained)
This repository streamlines the conversion of raw DNA sequencing data from FASTQ to BAM format, incorporating scripts that not only facilitate BAM conversion but also generate Sequence Alignment Map (SAM) files.
The DKFZ alignment workflow plugin originally developed at the eilslabs
Datastores for reads, not your papa's FASTQ files.
Nextflow-based BAM-to-FASTQ conversion and FASTQ-sorting workflow.
Deposited R scripts allow to execute a complete RNA-seq Pipeline, starting from sequence reads (FASTQ files) to mapping/annotate the genome using a reference, to counts the number of reads for every gene. when raw counts are obtained, DESeq2 module permits to find differentially expressed genes (DEG) and to perform statistical analysis. The last…
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