---
id: "claim:kallisto-bustools-and-kb-python-for-quantifying-bulk-single-cell-and-single-nuc-2ae8ac37ce:6608c677252a57aaafac"
kind: "claim"
title: "Kallisto bus -x <tech> -i index.idx -o output_dir -t 8 --batch-barcodes --batch batch.txt The batch.txt file looks as fo"
description: "Kallisto bus -x <tech> -i index.idx -o output_dir -t 8 --batch-barcodes --batch batch.txt The batch.txt file looks as follows: batch.txt Sample1 sample1_R1.fastq.gz sample1_R2.fastq.gz Sample2 sample2_R1.fastq.gz sample2_R2.fastq.gz Sample3 sample3_R1.fastq.gz sample3_R2.fastq.gz The sample ID is in the first column."
url: "https://sina.bio/claim/kallisto-bus-x-tech-i-index-idx-o-output-dir-t-8-batch-barcodes-batch-b-ad4096df"
---

# Kallisto bus -x <tech> -i index.idx -o output_dir -t 8 --batch-barcodes --batch batch.txt The batch.txt file looks as fo

Kallisto bus -x <tech> -i index.idx -o output_dir -t 8 --batch-barcodes --batch batch.txt The batch.txt file looks as follows: batch.txt Sample1 sample1_R1.fastq.gz sample1_R2.fastq.gz Sample2 sample2_R1.fastq.gz sample2_R2.fastq.gz Sample3 sample3_R1.fastq.gz sample3_R2.fastq.gz The sample ID is in the first column.

## Content

Kallisto bus -x <tech> -i index.idx -o output_dir -t 8 --batch-barcodes --batch batch.txt The batch.txt file looks as follows: batch.txt Sample1 sample1_R1.fastq.gz sample1_R2.fastq.gz Sample2 sample2_R1.fastq.gz sample2_R2.fastq.gz Sample3 sample3_R1.fastq.gz sample3_R2.fastq.gz The sample ID is in the first column.

## Metadata

```json
{
  "claim_position": 137,
  "source_publication_id": "version:kallisto-bustools-and-kb-python-for-quantifying-bulk-single-cell-and-single-nucleus-rna-seq--2024-10-10-nature-protocols",
  "source_work_id": "work:kallisto-bustools-and-kb-python-for-quantifying-bulk-single-cell-and-single-nucleus-rna-seq"
}
```

## Connections (1)

### kallisto, bustools and kb-python for quantifying bulk, single-cell and single-nucleus RNA-seq

- ID: `version:kallisto-bustools-and-kb-python-for-quantifying-bulk-single-cell-and-single-nucleus-rna-seq--2024-10-10-nature-protocols`
- Kind: `publication`
- Direction: `incoming`
- URL: <https://sina.bio/publication/kallisto-bustools-and-kb-python-for-quantifying-bulk-single-cell-and-si-2741fa66>

This publication contains this grounded claim.

> kallisto bus -x <tech> -i index.idx -o output_dir -t 8 --batch-barcodes --batch batch.txt Thebatch.txtfilelooksasfollows: batch.txt Sample1 sample1_R1.fastq.gz sample1_R2.fastq.gz Sample2 sample2_R1.fastq.gz sample2_R2.fastq.gz Sample3 sample3_R1.fastq.gz sample3_R2.fastq.gz ThesampleIDisinthefirstcolumn.

Source: 2024-10-10-nature-protocols.pdf — <https://sina.bio/source/2024-10-10-nature-protocols-pdf>