From bf2e76193f3b8f22a387bf35105c1f7bbb2fe05d Mon Sep 17 00:00:00 2001
From: ccialek <42818380+ccialek@users.noreply.github.com>
Date: Sun, 27 Jan 2019 16:04:20 -0700
Subject: [PATCH 1/2] Added the line of command

---
 README.md | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/README.md b/README.md
index 96ce893..d4bf6d4 100644
--- a/README.md
+++ b/README.md
@@ -29,9 +29,9 @@ Tests have not yet been created for this repository.
 
 ### Usage
 
-To run file converter:
+To run sequencing file converter:
 ```
-python <command here> 
+python seqfileconverter -f <input file> -o <output file> -d <discard file> -m <metadata file> -t <file type> 
 ```
 
 ## Contributing

From 92ce6ccdec45f66ed6c6f4211e6aed77bf6064f4 Mon Sep 17 00:00:00 2001
From: ccialek <42818380+ccialek@users.noreply.github.com>
Date: Sun, 27 Jan 2019 16:17:22 -0700
Subject: [PATCH 2/2] Added info for seqfileconverter users

Added basic info about the code under "getting started". I wanted to embed the diagram of how the converter works, but it didn't seem like I could do that... I'll upload it to the repo and if anyone has a better place for it then please move it there!
---
 README.md | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/README.md b/README.md
index d4bf6d4..45ecfaf 100644
--- a/README.md
+++ b/README.md
@@ -11,6 +11,8 @@ and using Python to solve problems or automate tasks.
 
 ## Getting Started
 
+Sequencing File Conveter allows the user to swap the format of their nucleic acid sequencing file (allowed file types: .qseq, .fastq, or .sam). Please refer to the seqfileconverter usage diagram to view the current supported swaps. 
+
 ### Prerequisites
 
 Utility scripts are written in Python3.
@@ -39,7 +41,7 @@ python seqfileconverter -f <input file> -o <output file> -d <discard file> -m <m
 This is a beginner, educational repository for students learning Python or R to contribute to. We are a small group of students at CSU studying biology and learning code through hands-on activities, please contact a member through the webpage to ask about joining before you contribute to this repository. 
 
 ### Proposed ideas: 
-* qSeq-FastQ converter
+* qSeq to/from SAM file converter (can be added as a module to seqfileconverter)
 * demultiplex libraries
 
 ## Authors