15 commits

Author	SHA1	Message	Date
sofstam	c47b9e55fa	Mix reads in emit	2023-04-04 18:01:02 +02:00
sofstam	8745fc625c	Correct output file from samtools/fastq	2023-03-29 15:36:20 +02:00
sofstam	102d53bd75	Subsitute samtools/bam2fq with samtools/fastq	2023-03-23 15:30:07 +01:00
Moritz E. Beber	246da8a7b0	chore: remove fixme comments	2023-03-11 11:28:42 +01:00
Moritz E. Beber	7c1133efb8	add more comments and slight style changes	2023-03-11 11:28:42 +01:00
Moritz E. Beber	5380bc18ec	fix: channels should match 1:1 without remaining elements	2023-03-11 11:28:42 +01:00
James Fellows Yates	059cd17114	Fix exporting of mapped/unmapped reads for consistency across both short and long reads	2023-02-07 11:43:40 +01:00
sofstam	481f90589c	Apply review suggestions	2022-11-23 09:08:22 +01:00
sofstam	30af26a8b3	Include the mapped reads in samtools stats	2022-11-22 16:50:50 +01:00
Sofia Stamouli	f1778acf35	Apply review suggestion	2022-10-31 09:31:13 +01:00
Sofia Stamouli	1bd6dbfe58	Add samtools stats for long-reads	2022-10-28 11:40:50 +02:00
James Fellows Yates	56bae85755	Remove necessity of patch	2022-10-11 12:38:18 +02:00
Moritz E. Beber	180cac0395	fix: adapt to new samtools/view input	2022-10-05 13:49:35 +02:00
Moritz E. Beber	f5af9fd939	fix: adjust import paths to re-organization	2022-10-05 13:40:43 +02:00
ljmesi	5e6be52fab	Implement hostremoval	2022-05-03 09:34:27 +02:00