rust-bio / rust-htslib

This library provides HTSlib bindings and a high level Rust API for reading and writing BAM files.

rust-bio/rust-htslib Issues

subsetting samples
Updated 3 months ago
Are there filter options available for pileup?
Updated 3 months ago4
get sequence reads from rust_htslib::bam::record::Seq
Closed 3 months ago2
Compiler issue on AArch64 Linux
Updated 4 months ago1
no method named `base` found for struct `rust_htslib::bam::Record` in the current scope
Closed 4 months ago3
How to access read group info from `Record`?
Updated 4 months ago2
error: could not compile `rust-htslib`
Updated 4 months ago
error[E0308]: mismatched types - expected raw pointer `*mut u8` during cross compilation
Closed 5 months ago
Reading bam from s3
Updated 6 months ago3
Seek/Tell for BGZF Module
Updated 6 months ago
[Feature Request] An option for pileup similar with `truncate` in pysam
Updated 7 months ago
Panic on omitted trailing FORMAT fields
Updated 7 months ago2
BCF reader partial unpacking for site-only queries
Updated 8 months ago
Plans to support modified bases (MM and ML tags)?
Closed 9 months ago3
Are there some default filters in alignment pileup?
Updated 9 months ago
How to operate on Format/Info fields for Records?
Updated 10 months ago2
[bug] Memory leak when using `faidx::Reader::fetch_seq()` ?
Updated 10 months ago10
Question: multi-threaded reading of BAM files
Updated a year ago
Qusestion: why CIGAR output write result different with `CigarString`?
Updated a year ago
Accessing the index file from a `bam::IndexedReader`
Closed a year ago4
faidx file not closed when Reader goes out of scope: Too many open files
Closed a year ago3
Passing a INFO tag as a FORMAT tag failed silently instead of triggering an error
Updated a year ago1
How to: empty sequence and quality for BAM entries
Closed a year ago2
Question: VCF file indexing function
Updated a year ago
`bgzf::Reader::set_thread_pool` causes the bgzf Reader to hang if the thread pool goes out of scope
Updated 2 years ago
Windows compatibility
Updated 2 years ago
Building conda recipe with rust-htslib as dependency: failure on osx
Updated 2 years ago1
bam reader won't close files and cause 'too many open files' error.
Updated 2 years ago
hts-sys can not be installed
Closed 3 years ago5
Support for BGZF writer?
Closed 2 years ago2
bcf::header::rid2name outputs incorrect name
Closed 2 years ago1
fastest way to locate reads which contain specify kemr use rust-htslib??
Closed 2 years ago4
publishing updated versions to crates.io
Closed 2 years ago2
Compile issue on OSX / M1
Closed 2 years ago2
Build portability is complicated by recent zlib-ng updates
Updated 2 years ago
Question about reference sequence
Closed 2 years ago1
Modify allele of a vcf entry
Closed 2 years ago1
Most recent releases not published on crates.io
Closed 3 years ago
Merge VCF headers
Updated 3 years ago2
How should bcf::Record::push_info_float work?
Updated 3 years ago1
Upgrade libdeflater
Closed 3 years ago
Problem creating new BAM records (SAM=Segfault,BAM=silent failure)
Updated 3 years ago8
Add update_aux function to BAM records.
Updated 3 years ago2
Quickest way for pileup at known position?
Updated 3 years ago
How to get the identity of an indel in pileup
Updated 3 years ago1
Confused with nex Aux functionality
Closed 3 years ago2
Capped number of reads on pileup?
Closed 3 years ago2
Slow regex(?) parsing in CigarString::try_from()
Closed 3 years ago2
BCF/VCF IndexedReader Segmentation Fault
Closed 3 years ago1
How to modify a BAM header?
Updated 3 years ago