genomewalker / bam-filter
A simple tool to calculate metrics from a BAM file and filter references with uneven coverages
☆10Updated this week
Related projects ⓘ
Alternatives and complementary repositories for bam-filter
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆74Updated 8 years ago
- A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt☆30Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated last year
- Read, manipulate and visualize 'Pairwise mApping Format' data in R☆68Updated 3 years ago
- Simple pileup-based variant caller☆83Updated 7 months ago
- Error correction of ONT transcript reads☆58Updated last year
- 🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies☆64Updated last month
- mBin: a methylation-based binning framework for metagenomic SMRT sequencing reads☆25Updated last year
- Split Kmer Analysis☆63Updated 2 years ago
- A small bash script that automates sweeping Guppy parameters in an attempt to optimise basecalling rate☆31Updated 2 years ago
- catalog for long-read sequencing tools☆32Updated last year
- Assembler for raw de novo genome assembly of long uncorrected reads.☆37Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆47Updated 3 years ago
- Filter SAM file for soft and hard clipped alignments☆46Updated 5 months ago
- Remove lambda phage reads from a fastq file☆28Updated last year
- Recombination-free trees☆56Updated last year
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆37Updated 11 months ago
- Extract metagenome-assembled genomes (MAGs) from metagenomic data using Hi-C.☆23Updated 9 months ago
- Splitting of sequence reads by internal adapter sequence search☆52Updated last year
- A tool for fetching nanopore fast5 files after filtering via demultiplexing, alignment, or other, to improve downstream processing effici…☆14Updated 5 years ago
- Compute N50/NG50 and auN/auNG☆31Updated last year
- Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file☆47Updated last month
- MarginPolish: Graph based assembly polishing☆45Updated 3 years ago
- ☆48Updated 3 months ago
- Visualize whole genome alignments as linear maps☆70Updated last month
- PhyloAcc a software to detect the changes of conservation of a genomic region☆29Updated last month
- ☆72Updated last month
- create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks☆38Updated 3 months ago
- ☆79Updated last year