bam-js

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Support for Content-Encoding:gzip(?)

2

Content-Encoding:gzip often confuses not just jbrowse but the web browser also In some limited cases, we can skip running pako unzip steps like this PR demonstrates and this will decode...

cmdcolin

Uses the buffer package's readBigInt64LE instead

cmdcolin

Typing issues

5

Hi, I'm trying to validate types (I'm using TS through JSDoc) in my codebase using `tsc`, but I stumbled upon a couple of issues in `@GMOD/[email protected]`. The first one: ```...

tuner

htsget auth support

4

Hello @cmdcolin, We are deploying JBrowse2 @UMCCR, [primarily for the htsget support](https://github.com/umccr/data-portal-client/pull/88), so that different web-based clients work fine using one data access interface (htsget). Unfortunately we hit a snag...

brainstorm

Htsget unable to fetch header from some endpoints

7

Ref ga4gh endpoint here https://github.com/samtools/hts-specs/pull/530 Rejects the bogus refname provided that we use currently Have to adjust to not specify any refname, but then it returns very large data chunks,...

cmdcolin

Large amount of short reads bogs jbrowse down

1

Issues like this show that large amounts of data with small genomes e.g. covid can bog down the browser https://github.com/GMOD/jbrowse/issues/1524 There are some things that this module could possibly do...

cmdcolin

Template PR for status callback, was worked on awhile ago but incomplete

cmdcolin

cmdcolin

Support BAI index aka BAM index index

1

cmdcolin

could use bam-js machinery or become a separate module

cmdcolin